Commit 1bfcaa62 authored by Adam Caprez's avatar Adam Caprez
Browse files

Merge branch 'biodata' into 'master'

Add table to biodata module

See merge request hcc/hcc-docs!134
parents c3f8cd7f 72cd82cc
...@@ -7,7 +7,7 @@ weight = "52" ...@@ -7,7 +7,7 @@ weight = "52"
HCC hosts multiple databases (BLAST, KEGG, PANTHER, InterProScan), genome files, short read aligned indices etc. on Crane. HCC hosts multiple databases (BLAST, KEGG, PANTHER, InterProScan), genome files, short read aligned indices etc. on Crane.
In order to use these resources, the "**biodata**" module needs to be loaded first. In order to use these resources, the "**biodata**" module needs to be loaded first.
For how to load module, please check [Module Commands](#module_commands). For how to load module, please check [Module Commands]({{< relref "module_commands" >}}).
Loading the "**biodata**" module will pre-set many environment variables, but most likely you will only need a subset of them. Environment variables can be used in your command or script by prefixing `$` to the name. Loading the "**biodata**" module will pre-set many environment variables, but most likely you will only need a subset of them. Environment variables can be used in your command or script by prefixing `$` to the name.
...@@ -79,5 +79,8 @@ cp /scratch/blast_nucleotide.results . ...@@ -79,5 +79,8 @@ cp /scratch/blast_nucleotide.results .
{{% /panel %}} {{% /panel %}}
The organisms and their appropriate environmental variables for all genomes and chromosome files, as well as for short read aligned indices are shown on the link below: ### Available Organisms
[Organisms]({{<relref "organisms" >}})
The organisms and their appropriate environmental variables for all genomes and chromosome files, as well as indices are shown in the table below.
{{< table url="http://rhino-head.unl.edu:8192/bio/data/json" >}}
1. [HCC-DOCS](index.html)
2. [HCC-DOCS Home](HCC-DOCS-Home_327685.html)
3. [HCC Documentation](HCC-Documentation_332651.html)
4. [Running Applications](Running-Applications_7471153.html)
5. [Bioinformatics Tools](Bioinformatics-Tools_8193279.html)
6. [Biodata Module](Biodata-Module_15171887.html)
<span id="title-text"> HCC-DOCS : Organisms </span>
===================================================
Created by <span class="author"> Adam Caprez</span> on Mar 10, 2016
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Arabidopsis\_thaliana</span>
| Short Name | Source | Build | Type |
|----------------------------------------------|--------|--------|----------------------------|
| ARABIDOPSIS\_THALIANA\_NCBI\_TAIR10 | NCBI | TAIR10 | Main Directory |
| ATH | NCBI | TAIR10 | Main Directory |
| BOWTIE\_ARABIDOPSIS\_THALIANA\_NCBI\_TAIR10 | NCBI | TAIR10 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_ATH | NCBI | TAIR10 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_ARABIDOPSIS\_THALIANA\_NCBI\_TAIR10 | NCBI | TAIR10 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_ATH | NCBI | TAIR10 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_ARABIDOPSIS\_THALIANA\_NCBI\_TAIR10 | NCBI | TAIR10 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_ATH | NCBI | TAIR10 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_ARABIDOPSIS\_THALIANA\_NCBI\_TAIR10 | NCBI | TAIR10 | Chromosome Fasta Files |
| CHR\_ATH | NCBI | TAIR10 | Chromosome Fasta Files |
| FAIDX\_ARABIDOPSIS\_THALIANA\_NCBI\_TAIR10 | NCBI | TAIR10 | Fasta Index .fai File |
| FAIDX\_ATH | NCBI | TAIR10 | Fasta Index .fai File |
| GENOME\_ARABIDOPSIS\_THALIANA\_NCBI\_TAIR10 | NCBI | TAIR10 | Genome Fasta File |
| GENOME\_ATH | NCBI | TAIR10 | Genome Fasta File |
| PICARD\_ARABIDOPSIS\_THALIANA\_NCBI\_TAIR10 | NCBI | TAIR10 | Picard .dict File |
| PICARD\_ATH | NCBI | TAIR10 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Bacillus\_cereus\_ATCC\_10987</span>
| Short Name | Source | Build | Type |
|------------------------------------------------------------|--------|------------|----------------------------|
| BACILLUS\_CEREUS\_ATCC\_10987 | NCBI | 2004-02-13 | Main Directory |
| BACILLUS\_CEREUS\_ATCC\_10987\_NCBI\_2004\_02\_13 | NCBI | 2004-02-13 | Main Directory |
| BOWTIE\_BACILLUS\_CEREUS\_ATCC\_10987 | NCBI | 2004-02-13 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_BACILLUS\_CEREUS\_ATCC\_10987\_NCBI\_2004\_02\_13 | NCBI | 2004-02-13 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_BACILLUS\_CEREUS\_ATCC\_10987 | NCBI | 2004-02-13 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_BACILLUS\_CEREUS\_ATCC\_10987\_NCBI\_2004\_02\_13 | NCBI | 2004-02-13 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_BACILLUS\_CEREUS\_ATCC\_10987 | NCBI | 2004-02-13 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_BACILLUS\_CEREUS\_ATCC\_10987\_NCBI\_2004\_02\_13 | NCBI | 2004-02-13 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_BACILLUS\_CEREUS\_ATCC\_10987 | NCBI | 2004-02-13 | Chromosome Fasta Files |
| CHR\_BACILLUS\_CEREUS\_ATCC\_10987\_NCBI\_2004\_02\_13 | NCBI | 2004-02-13 | Chromosome Fasta Files |
| FAIDX\_BACILLUS\_CEREUS\_ATCC\_10987 | NCBI | 2004-02-13 | Fasta Index .fai File |
| FAIDX\_BACILLUS\_CEREUS\_ATCC\_10987\_NCBI\_2004\_02\_13 | NCBI | 2004-02-13 | Fasta Index .fai File |
| GENOME\_BACILLUS\_CEREUS\_ATCC\_10987 | NCBI | 2004-02-13 | Genome Fasta File |
| GENOME\_BACILLUS\_CEREUS\_ATCC\_10987\_NCBI\_2004\_02\_13 | NCBI | 2004-02-13 | Genome Fasta File |
| PICARD\_BACILLUS\_CEREUS\_ATCC\_10987 | NCBI | 2004-02-13 | Picard .dict File |
| PICARD\_BACILLUS\_CEREUS\_ATCC\_10987\_NCBI\_2004\_02\_13 | NCBI | 2004-02-13 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Bacillus\_subtilis\_168</span>
| Short Name | Source | Build | Type |
|------------------------------------------------|---------|-------|----------------------------|
| BACILLUS\_SUBTILIS\_168\_ENSEMBL\_EB2 | Ensembl | EB2 | Main Directory |
| BOWTIE\_BACILLUS\_SUBTILIS\_168\_ENSEMBL\_EB2 | Ensembl | EB2 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_BSUBT\_168 | Ensembl | EB2 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_BACILLUS\_SUBTILIS\_168\_ENSEMBL\_EB2 | Ensembl | EB2 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_BSUBT\_168 | Ensembl | EB2 | Bwa\|Bowtie\|Bowtie2 Index |
| BSUBT\_168 | Ensembl | EB2 | Main Directory |
| BWA\_BACILLUS\_SUBTILIS\_168\_ENSEMBL\_EB2 | Ensembl | EB2 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_BSUBT\_168 | Ensembl | EB2 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_BACILLUS\_SUBTILIS\_168\_ENSEMBL\_EB2 | Ensembl | EB2 | Chromosome Fasta Files |
| CHR\_BSUBT\_168 | Ensembl | EB2 | Chromosome Fasta Files |
| FAIDX\_BACILLUS\_SUBTILIS\_168\_ENSEMBL\_EB2 | Ensembl | EB2 | Fasta Index .fai File |
| FAIDX\_BSUBT\_168 | Ensembl | EB2 | Fasta Index .fai File |
| GENOME\_BACILLUS\_SUBTILIS\_168\_ENSEMBL\_EB2 | Ensembl | EB2 | Genome Fasta File |
| GENOME\_BSUBT\_168 | Ensembl | EB2 | Genome Fasta File |
| PICARD\_BACILLUS\_SUBTILIS\_168\_ENSEMBL\_EB2 | Ensembl | EB2 | Picard .dict File |
| PICARD\_BSUBT\_168 | Ensembl | EB2 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Bos\_taurus</span>
| Short Name | Source | Build | Type |
|------------------------------------------|---------|------------|----------------------------|
| BOS\_TAURUS\_ENSEMBL\_UMD\_3\_1 | Ensembl | UMD\_3.1 | Main Directory |
| BOS\_TAURUS\_ENSEMBL\_UMD3\_1 | Ensembl | UMD3.1 | Main Directory |
| BOS\_TAURUS\_NCBI\_UMD\_3\_1 | NCBI | UMD\_3.1 | Main Directory |
| BOS\_TAURUS\_NCBI\_UMD\_3\_1\_1 | NCBI | UMD\_3.1.1 | Main Directory |
| BOWTIE\_BOS\_TAURUS\_ENSEMBL\_UMD\_3\_1 | Ensembl | UMD\_3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_BOS\_TAURUS\_ENSEMBL\_UMD3\_1 | Ensembl | UMD3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_BOS\_TAURUS\_NCBI\_UMD\_3\_1 | NCBI | UMD\_3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_BOS\_TAURUS\_NCBI\_UMD\_3\_1\_1 | NCBI | UMD\_3.1.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_COW | NCBI | UMD\_3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_BOS\_TAURUS\_ENSEMBL\_UMD\_3\_1 | Ensembl | UMD\_3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_BOS\_TAURUS\_ENSEMBL\_UMD3\_1 | Ensembl | UMD3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_BOS\_TAURUS\_NCBI\_UMD\_3\_1 | NCBI | UMD\_3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_BOS\_TAURUS\_NCBI\_UMD\_3\_1\_1 | NCBI | UMD\_3.1.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_COW | NCBI | UMD\_3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_BOS\_TAURUS\_ENSEMBL\_UMD\_3\_1 | Ensembl | UMD\_3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_BOS\_TAURUS\_ENSEMBL\_UMD3\_1 | Ensembl | UMD3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_BOS\_TAURUS\_NCBI\_UMD\_3\_1 | NCBI | UMD\_3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_BOS\_TAURUS\_NCBI\_UMD\_3\_1\_1 | NCBI | UMD\_3.1.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_COW | NCBI | UMD\_3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_BOS\_TAURUS\_ENSEMBL\_UMD\_3\_1 | Ensembl | UMD\_3.1 | Chromosome Fasta Files |
| CHR\_BOS\_TAURUS\_ENSEMBL\_UMD3\_1 | Ensembl | UMD3.1 | Chromosome Fasta Files |
| CHR\_BOS\_TAURUS\_NCBI\_UMD\_3\_1 | NCBI | UMD\_3.1 | Chromosome Fasta Files |
| CHR\_BOS\_TAURUS\_NCBI\_UMD\_3\_1\_1 | NCBI | UMD\_3.1.1 | Chromosome Fasta Files |
| CHR\_COW | NCBI | UMD\_3.1 | Chromosome Fasta Files |
| COW | NCBI | UMD\_3.1 | Main Directory |
| FAIDX\_BOS\_TAURUS\_ENSEMBL\_UMD\_3\_1 | Ensembl | UMD\_3.1 | Fasta Index .fai File |
| FAIDX\_BOS\_TAURUS\_ENSEMBL\_UMD3\_1 | Ensembl | UMD3.1 | Fasta Index .fai File |
| FAIDX\_BOS\_TAURUS\_NCBI\_UMD\_3\_1 | NCBI | UMD\_3.1 | Fasta Index .fai File |
| FAIDX\_BOS\_TAURUS\_NCBI\_UMD\_3\_1\_1 | NCBI | UMD\_3.1.1 | Fasta Index .fai File |
| FAIDX\_COW | NCBI | UMD\_3.1 | Fasta Index .fai File |
| GENOME\_BOS\_TAURUS\_ENSEMBL\_UMD\_3\_1 | Ensembl | UMD\_3.1 | Genome Fasta File |
| GENOME\_BOS\_TAURUS\_ENSEMBL\_UMD3\_1 | Ensembl | UMD3.1 | Genome Fasta File |
| GENOME\_BOS\_TAURUS\_NCBI\_UMD\_3\_1 | NCBI | UMD\_3.1 | Genome Fasta File |
| GENOME\_BOS\_TAURUS\_NCBI\_UMD\_3\_1\_1 | NCBI | UMD\_3.1.1 | Genome Fasta File |
| GENOME\_COW | NCBI | UMD\_3.1 | Genome Fasta File |
| PICARD\_BOS\_TAURUS\_ENSEMBL\_UMD\_3\_1 | Ensembl | UMD\_3.1 | Picard .dict File |
| PICARD\_BOS\_TAURUS\_ENSEMBL\_UMD3\_1 | Ensembl | UMD3.1 | Picard .dict File |
| PICARD\_BOS\_TAURUS\_NCBI\_UMD\_3\_1 | NCBI | UMD\_3.1 | Picard .dict File |
| PICARD\_BOS\_TAURUS\_NCBI\_UMD\_3\_1\_1 | NCBI | UMD\_3.1.1 | Picard .dict File |
| PICARD\_COW | NCBI | UMD\_3.1 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Caenorhabditis\_elegans</span>
| Short Name | Source | Build | Type |
|-----------------------------------------------|--------|-------|----------------------------|
| BOWTIE\_CAENORHABDITIS\_ELEGANS\_NCBI\_WS195 | NCBI | WS195 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_CELEGANS | NCBI | WS195 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_CAENORHABDITIS\_ELEGANS\_NCBI\_WS195 | NCBI | WS195 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_CELEGANS | NCBI | WS195 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_CAENORHABDITIS\_ELEGANS\_NCBI\_WS195 | NCBI | WS195 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_CELEGANS | NCBI | WS195 | Bwa\|Bowtie\|Bowtie2 Index |
| CAENORHABDITIS\_ELEGANS\_NCBI\_WS195 | NCBI | WS195 | Main Directory |
| CELEGANS | NCBI | WS195 | Main Directory |
| CHR\_CAENORHABDITIS\_ELEGANS\_NCBI\_WS195 | NCBI | WS195 | Chromosome Fasta Files |
| CHR\_CELEGANS | NCBI | WS195 | Chromosome Fasta Files |
| FAIDX\_CAENORHABDITIS\_ELEGANS\_NCBI\_WS195 | NCBI | WS195 | Fasta Index .fai File |
| FAIDX\_CELEGANS | NCBI | WS195 | Fasta Index .fai File |
| GENOME\_CAENORHABDITIS\_ELEGANS\_NCBI\_WS195 | NCBI | WS195 | Genome Fasta File |
| GENOME\_CELEGANS | NCBI | WS195 | Genome Fasta File |
| PICARD\_CAENORHABDITIS\_ELEGANS\_NCBI\_WS195 | NCBI | WS195 | Picard .dict File |
| PICARD\_CELEGANS | NCBI | WS195 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Canis\_familiaris</span>
| Short Name | Source | Build | Type |
|---------------------------------------------|--------|----------|----------------------------|
| BOWTIE\_CANIS\_FAMILIARIS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_DOG | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_CANIS\_FAMILIARIS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_DOG | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_CANIS\_FAMILIARIS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_DOG | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| CANIS\_FAMILIARIS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Main Directory |
| CHR\_CANIS\_FAMILIARIS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Chromosome Fasta Files |
| CHR\_DOG | NCBI | build3.1 | Chromosome Fasta Files |
| DOG | NCBI | build3.1 | Main Directory |
| FAIDX\_CANIS\_FAMILIARIS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Fasta Index .fai File |
| FAIDX\_DOG | NCBI | build3.1 | Fasta Index .fai File |
| GENOME\_CANIS\_FAMILIARIS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Genome Fasta File |
| GENOME\_DOG | NCBI | build3.1 | Genome Fasta File |
| PICARD\_CANIS\_FAMILIARIS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Picard .dict File |
| PICARD\_DOG | NCBI | build3.1 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Danio\_rerio</span>
| Short Name | Source | Build | Type |
|----------------------------------|--------|-------|----------------------------|
| BOWTIE\_DANIO\_RERIO | NCBI | Zv9 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_DANIO\_RERIO\_NCBI\_ZV9 | NCBI | Zv9 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_DANIO\_RERIO | NCBI | Zv9 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_DANIO\_RERIO\_NCBI\_ZV9 | NCBI | Zv9 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_DANIO\_RERIO | NCBI | Zv9 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_DANIO\_RERIO\_NCBI\_ZV9 | NCBI | Zv9 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_DANIO\_RERIO | NCBI | Zv9 | Chromosome Fasta Files |
| CHR\_DANIO\_RERIO\_NCBI\_ZV9 | NCBI | Zv9 | Chromosome Fasta Files |
| DANIO\_RERIO | NCBI | Zv9 | Main Directory |
| DANIO\_RERIO\_NCBI\_ZV9 | NCBI | Zv9 | Main Directory |
| FAIDX\_DANIO\_RERIO | NCBI | Zv9 | Fasta Index .fai File |
| FAIDX\_DANIO\_RERIO\_NCBI\_ZV9 | NCBI | Zv9 | Fasta Index .fai File |
| GENOME\_DANIO\_RERIO | NCBI | Zv9 | Genome Fasta File |
| GENOME\_DANIO\_RERIO\_NCBI\_ZV9 | NCBI | Zv9 | Genome Fasta File |
| PICARD\_DANIO\_RERIO | NCBI | Zv9 | Picard .dict File |
| PICARD\_DANIO\_RERIO\_NCBI\_ZV9 | NCBI | Zv9 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Drosophila\_melanogaster</span>
| Short Name | Source | Build | Type |
|-----------------------------------------------------|--------|-----------|----------------------------|
| BOWTIE\_DROSOPHILA\_MELANOGASTER | NCBI | build5.41 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_DROSOPHILA\_MELANOGASTER\_NCBI\_BUILD5\_41 | NCBI | build5.41 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_DROSOPHILA\_MELANOGASTER | NCBI | build5.41 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_DROSOPHILA\_MELANOGASTER\_NCBI\_BUILD5\_41 | NCBI | build5.41 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_DROSOPHILA\_MELANOGASTER | NCBI | build5.41 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_DROSOPHILA\_MELANOGASTER\_NCBI\_BUILD5\_41 | NCBI | build5.41 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_DROSOPHILA\_MELANOGASTER | NCBI | build5.41 | Chromosome Fasta Files |
| CHR\_DROSOPHILA\_MELANOGASTER\_NCBI\_BUILD5\_41 | NCBI | build5.41 | Chromosome Fasta Files |
| DROSOPHILA\_MELANOGASTER | NCBI | build5.41 | Main Directory |
| DROSOPHILA\_MELANOGASTER\_NCBI\_BUILD5\_41 | NCBI | build5.41 | Main Directory |
| FAIDX\_DROSOPHILA\_MELANOGASTER | NCBI | build5.41 | Fasta Index .fai File |
| FAIDX\_DROSOPHILA\_MELANOGASTER\_NCBI\_BUILD5\_41 | NCBI | build5.41 | Fasta Index .fai File |
| GENOME\_DROSOPHILA\_MELANOGASTER | NCBI | build5.41 | Genome Fasta File |
| GENOME\_DROSOPHILA\_MELANOGASTER\_NCBI\_BUILD5\_41 | NCBI | build5.41 | Genome Fasta File |
| PICARD\_DROSOPHILA\_MELANOGASTER | NCBI | build5.41 | Picard .dict File |
| PICARD\_DROSOPHILA\_MELANOGASTER\_NCBI\_BUILD5\_41 | NCBI | build5.41 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Enterobacteriophage\_lambda</span>
| Short Name | Source | Build | Type |
|----------------------------------------------------------|--------|------------|----------------------------|
| BOWTIE\_ELAMBDA | NCBI | 1993-04-28 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_ENTEROBACTERIOPHAGE\_LAMBDA\_NCBI\_1993\_04\_28 | NCBI | 1993-04-28 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_ELAMBDA | NCBI | 1993-04-28 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_ENTEROBACTERIOPHAGE\_LAMBDA\_NCBI\_1993\_04\_28 | NCBI | 1993-04-28 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_ELAMBDA | NCBI | 1993-04-28 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_ENTEROBACTERIOPHAGE\_LAMBDA\_NCBI\_1993\_04\_28 | NCBI | 1993-04-28 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_ELAMBDA | NCBI | 1993-04-28 | Chromosome Fasta Files |
| CHR\_ENTEROBACTERIOPHAGE\_LAMBDA\_NCBI\_1993\_04\_28 | NCBI | 1993-04-28 | Chromosome Fasta Files |
| ELAMBDA | NCBI | 1993-04-28 | Main Directory |
| ENTEROBACTERIOPHAGE\_LAMBDA\_NCBI\_1993\_04\_28 | NCBI | 1993-04-28 | Main Directory |
| FAIDX\_ELAMBDA | NCBI | 1993-04-28 | Fasta Index .fai File |
| FAIDX\_ENTEROBACTERIOPHAGE\_LAMBDA\_NCBI\_1993\_04\_28 | NCBI | 1993-04-28 | Fasta Index .fai File |
| GENOME\_ELAMBDA | NCBI | 1993-04-28 | Genome Fasta File |
| GENOME\_ENTEROBACTERIOPHAGE\_LAMBDA\_NCBI\_1993\_04\_28 | NCBI | 1993-04-28 | Genome Fasta File |
| PICARD\_ELAMBDA | NCBI | 1993-04-28 | Picard .dict File |
| PICARD\_ENTEROBACTERIOPHAGE\_LAMBDA\_NCBI\_1993\_04\_28 | NCBI | 1993-04-28 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Equus\_caballus</span>
| Short Name | Source | Build | Type |
|--------------------------------------------|--------|-----------|----------------------------|
| BOWTIE\_EQUUS\_CABALLUS\_NCBI\_EQUCAB2\_0 | NCBI | EquCab2.0 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_HORSE | NCBI | EquCab2.0 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_EQUUS\_CABALLUS\_NCBI\_EQUCAB2\_0 | NCBI | EquCab2.0 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_HORSE | NCBI | EquCab2.0 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_EQUUS\_CABALLUS\_NCBI\_EQUCAB2\_0 | NCBI | EquCab2.0 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_HORSE | NCBI | EquCab2.0 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_EQUUS\_CABALLUS\_NCBI\_EQUCAB2\_0 | NCBI | EquCab2.0 | Chromosome Fasta Files |
| CHR\_HORSE | NCBI | EquCab2.0 | Chromosome Fasta Files |
| EQUUS\_CABALLUS\_NCBI\_EQUCAB2\_0 | NCBI | EquCab2.0 | Main Directory |
| FAIDX\_EQUUS\_CABALLUS\_NCBI\_EQUCAB2\_0 | NCBI | EquCab2.0 | Fasta Index .fai File |
| FAIDX\_HORSE | NCBI | EquCab2.0 | Fasta Index .fai File |
| GENOME\_EQUUS\_CABALLUS\_NCBI\_EQUCAB2\_0 | NCBI | EquCab2.0 | Genome Fasta File |
| GENOME\_HORSE | NCBI | EquCab2.0 | Genome Fasta File |
| HORSE | NCBI | EquCab2.0 | Main Directory |
| PICARD\_EQUUS\_CABALLUS\_NCBI\_EQUCAB2\_0 | NCBI | EquCab2.0 | Picard .dict File |
| PICARD\_HORSE | NCBI | EquCab2.0 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Escherichia\_coli\_K\_12\_DH10B</span>
| Short Name | Source | Build | Type |
|--------------------------------------------------------------|--------|------------|----------------------------|
| BOWTIE\_ESCHERICHIA\_COLI\_K\_12\_DH10B | NCBI | 2008-03-17 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_ESCHERICHIA\_COLI\_K\_12\_DH10B\_NCBI\_2008\_03\_17 | NCBI | 2008-03-17 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_ESCHERICHIA\_COLI\_K\_12\_DH10B | NCBI | 2008-03-17 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_ESCHERICHIA\_COLI\_K\_12\_DH10B\_NCBI\_2008\_03\_17 | NCBI | 2008-03-17 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_ESCHERICHIA\_COLI\_K\_12\_DH10B | NCBI | 2008-03-17 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_ESCHERICHIA\_COLI\_K\_12\_DH10B\_NCBI\_2008\_03\_17 | NCBI | 2008-03-17 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_ESCHERICHIA\_COLI\_K\_12\_DH10B | NCBI | 2008-03-17 | Chromosome Fasta Files |
| CHR\_ESCHERICHIA\_COLI\_K\_12\_DH10B\_NCBI\_2008\_03\_17 | NCBI | 2008-03-17 | Chromosome Fasta Files |
| ESCHERICHIA\_COLI\_K\_12\_DH10B | NCBI | 2008-03-17 | Main Directory |
| ESCHERICHIA\_COLI\_K\_12\_DH10B\_NCBI\_2008\_03\_17 | NCBI | 2008-03-17 | Main Directory |
| FAIDX\_ESCHERICHIA\_COLI\_K\_12\_DH10B | NCBI | 2008-03-17 | Fasta Index .fai File |
| FAIDX\_ESCHERICHIA\_COLI\_K\_12\_DH10B\_NCBI\_2008\_03\_17 | NCBI | 2008-03-17 | Fasta Index .fai File |
| GENOME\_ESCHERICHIA\_COLI\_K\_12\_DH10B | NCBI | 2008-03-17 | Genome Fasta File |
| GENOME\_ESCHERICHIA\_COLI\_K\_12\_DH10B\_NCBI\_2008\_03\_17 | NCBI | 2008-03-17 | Genome Fasta File |
| PICARD\_ESCHERICHIA\_COLI\_K\_12\_DH10B | NCBI | 2008-03-17 | Picard .dict File |
| PICARD\_ESCHERICHIA\_COLI\_K\_12\_DH10B\_NCBI\_2008\_03\_17 | NCBI | 2008-03-17 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Escherichia\_coli\_K\_12\_MG1655</span>
| Short Name | Source | Build | Type |
|---------------------------------------------------------------|--------|------------|----------------------------|
| BOWTIE\_ESCHERICHIA\_COLI\_K\_12\_MG1655 | NCBI | 2001-10-15 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_ESCHERICHIA\_COLI\_K\_12\_MG1655\_NCBI\_2001\_10\_15 | NCBI | 2001-10-15 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_ESCHERICHIA\_COLI\_K\_12\_MG1655 | NCBI | 2001-10-15 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_ESCHERICHIA\_COLI\_K\_12\_MG1655\_NCBI\_2001\_10\_15 | NCBI | 2001-10-15 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_ESCHERICHIA\_COLI\_K\_12\_MG1655 | NCBI | 2001-10-15 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_ESCHERICHIA\_COLI\_K\_12\_MG1655\_NCBI\_2001\_10\_15 | NCBI | 2001-10-15 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_ESCHERICHIA\_COLI\_K\_12\_MG1655 | NCBI | 2001-10-15 | Chromosome Fasta Files |
| CHR\_ESCHERICHIA\_COLI\_K\_12\_MG1655\_NCBI\_2001\_10\_15 | NCBI | 2001-10-15 | Chromosome Fasta Files |
| ESCHERICHIA\_COLI\_K\_12\_MG1655 | NCBI | 2001-10-15 | Main Directory |
| ESCHERICHIA\_COLI\_K\_12\_MG1655\_NCBI\_2001\_10\_15 | NCBI | 2001-10-15 | Main Directory |
| FAIDX\_ESCHERICHIA\_COLI\_K\_12\_MG1655 | NCBI | 2001-10-15 | Fasta Index .fai File |
| FAIDX\_ESCHERICHIA\_COLI\_K\_12\_MG1655\_NCBI\_2001\_10\_15 | NCBI | 2001-10-15 | Fasta Index .fai File |
| GENOME\_ESCHERICHIA\_COLI\_K\_12\_MG1655 | NCBI | 2001-10-15 | Genome Fasta File |
| GENOME\_ESCHERICHIA\_COLI\_K\_12\_MG1655\_NCBI\_2001\_10\_15 | NCBI | 2001-10-15 | Genome Fasta File |
| PICARD\_ESCHERICHIA\_COLI\_K\_12\_MG1655 | NCBI | 2001-10-15 | Picard .dict File |
| PICARD\_ESCHERICHIA\_COLI\_K\_12\_MG1655\_NCBI\_2001\_10\_15 | NCBI | 2001-10-15 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Gallus\_gallus</span>
| Short Name | Source | Build | Type |
|------------------------------------------|--------|----------|----------------------------|
| BOWTIE\_GALLUS\_GALLUS | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_GALLUS\_GALLUS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_GALLUS\_GALLUS | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_GALLUS\_GALLUS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_GALLUS\_GALLUS | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_GALLUS\_GALLUS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_GALLUS\_GALLUS | NCBI | build3.1 | Chromosome Fasta Files |
| CHR\_GALLUS\_GALLUS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Chromosome Fasta Files |
| FAIDX\_GALLUS\_GALLUS | NCBI | build3.1 | Fasta Index .fai File |
| FAIDX\_GALLUS\_GALLUS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Fasta Index .fai File |
| GALLUS\_GALLUS | NCBI | build3.1 | Main Directory |
| GALLUS\_GALLUS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Main Directory |
| GENOME\_GALLUS\_GALLUS | NCBI | build3.1 | Genome Fasta File |
| GENOME\_GALLUS\_GALLUS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Genome Fasta File |
| PICARD\_GALLUS\_GALLUS | NCBI | build3.1 | Picard .dict File |
| PICARD\_GALLUS\_GALLUS\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Glycine\_max</span>
| Short Name | Source | Build | Type |
|--------------------------------------|---------|-------|----------------------------|
| BOWTIE\_GLYCINE\_MAX\_ENSEMBL\_GM01 | Ensembl | Gm01 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_SOYBEAN | Ensembl | Gm01 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_GLYCINE\_MAX\_ENSEMBL\_GM01 | Ensembl | Gm01 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_SOYBEAN | Ensembl | Gm01 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_GLYCINE\_MAX\_ENSEMBL\_GM01 | Ensembl | Gm01 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_SOYBEAN | Ensembl | Gm01 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_GLYCINE\_MAX\_ENSEMBL\_GM01 | Ensembl | Gm01 | Chromosome Fasta Files |
| CHR\_SOYBEAN | Ensembl | Gm01 | Chromosome Fasta Files |
| FAIDX\_GLYCINE\_MAX\_ENSEMBL\_GM01 | Ensembl | Gm01 | Fasta Index .fai File |
| FAIDX\_SOYBEAN | Ensembl | Gm01 | Fasta Index .fai File |
| GENOME\_GLYCINE\_MAX\_ENSEMBL\_GM01 | Ensembl | Gm01 | Genome Fasta File |
| GENOME\_SOYBEAN | Ensembl | Gm01 | Genome Fasta File |
| GLYCINE\_MAX\_ENSEMBL\_GM01 | Ensembl | Gm01 | Main Directory |
| PICARD\_GLYCINE\_MAX\_ENSEMBL\_GM01 | Ensembl | Gm01 | Picard .dict File |
| PICARD\_SOYBEAN | Ensembl | Gm01 | Picard .dict File |
| SOYBEAN | Ensembl | Gm01 | Main Directory |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Homo\_sapiens</span>
| Short Name | Source | Build | Type |
|------------------------------------------|--------|-----------|----------------------------|
| BOWTIE\_HOMO\_SAPIENS\_NCBI\_BUILD37\_2 | NCBI | build37.2 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_HUMAN | NCBI | build37.2 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_HOMO\_SAPIENS\_NCBI\_BUILD37\_2 | NCBI | build37.2 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_HUMAN | NCBI | build37.2 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_HOMO\_SAPIENS\_NCBI\_BUILD37\_2 | NCBI | build37.2 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_HUMAN | NCBI | build37.2 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_HOMO\_SAPIENS\_NCBI\_BUILD37\_2 | NCBI | build37.2 | Chromosome Fasta Files |
| CHR\_HUMAN | NCBI | build37.2 | Chromosome Fasta Files |
| FAIDX\_HOMO\_SAPIENS\_NCBI\_BUILD37\_2 | NCBI | build37.2 | Fasta Index .fai File |
| FAIDX\_HUMAN | NCBI | build37.2 | Fasta Index .fai File |
| GENOME\_HOMO\_SAPIENS\_NCBI\_BUILD37\_2 | NCBI | build37.2 | Genome Fasta File |
| GENOME\_HUMAN | NCBI | build37.2 | Genome Fasta File |
| HOMO\_SAPIENS\_NCBI\_BUILD37\_2 | NCBI | build37.2 | Main Directory |
| HUMAN | NCBI | build37.2 | Main Directory |
| PICARD\_HOMO\_SAPIENS\_NCBI\_BUILD37\_2 | NCBI | build37.2 | Picard .dict File |
| PICARD\_HUMAN | NCBI | build37.2 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Macaca\_mulatta</span>
| Short Name | Source | Build | Type |
|--------------------------------------------|---------|---------|----------------------------|
| BOWTIE\_MACACA\_MULATTA | Ensembl | Mmul\_1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_MACACA\_MULATTA\_ENSEMBL\_MMUL\_1 | Ensembl | Mmul\_1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_MACACA\_MULATTA | Ensembl | Mmul\_1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_MACACA\_MULATTA\_ENSEMBL\_MMUL\_1 | Ensembl | Mmul\_1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_MACACA\_MULATTA | Ensembl | Mmul\_1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_MACACA\_MULATTA\_ENSEMBL\_MMUL\_1 | Ensembl | Mmul\_1 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_MACACA\_MULATTA | Ensembl | Mmul\_1 | Chromosome Fasta Files |
| CHR\_MACACA\_MULATTA\_ENSEMBL\_MMUL\_1 | Ensembl | Mmul\_1 | Chromosome Fasta Files |
| FAIDX\_MACACA\_MULATTA | Ensembl | Mmul\_1 | Fasta Index .fai File |
| FAIDX\_MACACA\_MULATTA\_ENSEMBL\_MMUL\_1 | Ensembl | Mmul\_1 | Fasta Index .fai File |
| GENOME\_MACACA\_MULATTA | Ensembl | Mmul\_1 | Genome Fasta File |
| GENOME\_MACACA\_MULATTA\_ENSEMBL\_MMUL\_1 | Ensembl | Mmul\_1 | Genome Fasta File |
| MACACA\_MULATTA | Ensembl | Mmul\_1 | Main Directory |
| MACACA\_MULATTA\_ENSEMBL\_MMUL\_1 | Ensembl | Mmul\_1 | Main Directory |
| PICARD\_MACACA\_MULATTA | Ensembl | Mmul\_1 | Picard .dict File |
| PICARD\_MACACA\_MULATTA\_ENSEMBL\_MMUL\_1 | Ensembl | Mmul\_1 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Mus\_musculus</span>
| Short Name | Source | Build | Type |
|--------------------------------------|--------|--------|----------------------------|
| BOWTIE\_MOUSE | NCBI | GRCm38 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_MUS\_MUSCULUS\_NCBI\_GRCM38 | NCBI | GRCm38 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_MOUSE | NCBI | GRCm38 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_MUS\_MUSCULUS\_NCBI\_GRCM38 | NCBI | GRCm38 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_MOUSE | NCBI | GRCm38 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_MUS\_MUSCULUS\_NCBI\_GRCM38 | NCBI | GRCm38 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_MOUSE | NCBI | GRCm38 | Chromosome Fasta Files |
| CHR\_MUS\_MUSCULUS\_NCBI\_GRCM38 | NCBI | GRCm38 | Chromosome Fasta Files |
| FAIDX\_MOUSE | NCBI | GRCm38 | Fasta Index .fai File |
| FAIDX\_MUS\_MUSCULUS\_NCBI\_GRCM38 | NCBI | GRCm38 | Fasta Index .fai File |
| GENOME\_MOUSE | NCBI | GRCm38 | Genome Fasta File |
| GENOME\_MUS\_MUSCULUS\_NCBI\_GRCM38 | NCBI | GRCm38 | Genome Fasta File |
| MOUSE | NCBI | GRCm38 | Main Directory |
| MUS\_MUSCULUS\_NCBI\_GRCM38 | NCBI | GRCm38 | Main Directory |
| PICARD\_MOUSE | NCBI | GRCm38 | Picard .dict File |
| PICARD\_MUS\_MUSCULUS\_NCBI\_GRCM38 | NCBI | GRCm38 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Mycobacterium\_tuberculosis\_H37RV</span>
| Short Name | Source | Build | Type |
|-----------------------------------------------------------------|--------|------------|----------------------------|
| BOWTIE\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV | NCBI | 2001-09-07 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV\_NCBI\_2001\_09\_07 | NCBI | 2001-09-07 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV | NCBI | 2001-09-07 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV\_NCBI\_2001\_09\_07 | NCBI | 2001-09-07 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV | NCBI | 2001-09-07 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV\_NCBI\_2001\_09\_07 | NCBI | 2001-09-07 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV | NCBI | 2001-09-07 | Chromosome Fasta Files |
| CHR\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV\_NCBI\_2001\_09\_07 | NCBI | 2001-09-07 | Chromosome Fasta Files |
| FAIDX\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV | NCBI | 2001-09-07 | Fasta Index .fai File |
| FAIDX\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV\_NCBI\_2001\_09\_07 | NCBI | 2001-09-07 | Fasta Index .fai File |
| GENOME\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV | NCBI | 2001-09-07 | Genome Fasta File |
| GENOME\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV\_NCBI\_2001\_09\_07 | NCBI | 2001-09-07 | Genome Fasta File |
| MYCOBACTERIUM\_TUBERCULOSIS\_H37RV | NCBI | 2001-09-07 | Main Directory |
| MYCOBACTERIUM\_TUBERCULOSIS\_H37RV\_NCBI\_2001\_09\_07 | NCBI | 2001-09-07 | Main Directory |
| PICARD\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV | NCBI | 2001-09-07 | Picard .dict File |
| PICARD\_MYCOBACTERIUM\_TUBERCULOSIS\_H37RV\_NCBI\_2001\_09\_07 | NCBI | 2001-09-07 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Oryza\_sativa\_japonica</span>
| Short Name | Source | Build | Type |
|--------------------------------------------------------|---------|-----------|----------------------------|
| BOWTIE\_ORYZA\_SATIVA\_JAPONICA\_ENSEMBL\_IRGSP\_1\_0 | Ensembl | IRGSP-1.0 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_RICE | Ensembl | IRGSP-1.0 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_ORYZA\_SATIVA\_JAPONICA\_ENSEMBL\_IRGSP\_1\_0 | Ensembl | IRGSP-1.0 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_RICE | Ensembl | IRGSP-1.0 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_ORYZA\_SATIVA\_JAPONICA\_ENSEMBL\_IRGSP\_1\_0 | Ensembl | IRGSP-1.0 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_RICE | Ensembl | IRGSP-1.0 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_ORYZA\_SATIVA\_JAPONICA\_ENSEMBL\_IRGSP\_1\_0 | Ensembl | IRGSP-1.0 | Chromosome Fasta Files |
| CHR\_RICE | Ensembl | IRGSP-1.0 | Chromosome Fasta Files |
| FAIDX\_ORYZA\_SATIVA\_JAPONICA\_ENSEMBL\_IRGSP\_1\_0 | Ensembl | IRGSP-1.0 | Fasta Index .fai File |
| FAIDX\_RICE | Ensembl | IRGSP-1.0 | Fasta Index .fai File |
| GENOME\_ORYZA\_SATIVA\_JAPONICA\_ENSEMBL\_IRGSP\_1\_0 | Ensembl | IRGSP-1.0 | Genome Fasta File |
| GENOME\_RICE | Ensembl | IRGSP-1.0 | Genome Fasta File |
| ORYZA\_SATIVA\_JAPONICA\_ENSEMBL\_IRGSP\_1\_0 | Ensembl | IRGSP-1.0 | Main Directory |
| PICARD\_ORYZA\_SATIVA\_JAPONICA\_ENSEMBL\_IRGSP\_1\_0 | Ensembl | IRGSP-1.0 | Picard .dict File |
| PICARD\_RICE | Ensembl | IRGSP-1.0 | Picard .dict File |
| RICE | Ensembl | IRGSP-1.0 | Main Directory |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Pan\_troglodytes</span>
| Short Name | Source | Build | Type |
|--------------------------------------------|--------|----------|----------------------------|
| BOWTIE\_PAN\_TROGLODYTES | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_PAN\_TROGLODYTES\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_PAN\_TROGLODYTES | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_PAN\_TROGLODYTES\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_PAN\_TROGLODYTES | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_PAN\_TROGLODYTES\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_PAN\_TROGLODYTES | NCBI | build3.1 | Chromosome Fasta Files |
| CHR\_PAN\_TROGLODYTES\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Chromosome Fasta Files |
| FAIDX\_PAN\_TROGLODYTES | NCBI | build3.1 | Fasta Index .fai File |
| FAIDX\_PAN\_TROGLODYTES\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Fasta Index .fai File |
| GENOME\_PAN\_TROGLODYTES | NCBI | build3.1 | Genome Fasta File |
| GENOME\_PAN\_TROGLODYTES\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Genome Fasta File |
| PAN\_TROGLODYTES | NCBI | build3.1 | Main Directory |
| PAN\_TROGLODYTES\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Main Directory |
| PICARD\_PAN\_TROGLODYTES | NCBI | build3.1 | Picard .dict File |
| PICARD\_PAN\_TROGLODYTES\_NCBI\_BUILD3\_1 | NCBI | build3.1 | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">PhiX</span>
| Short Name | Source | Build | Type |
|------------------------------|----------|-------|----------------------------|
| BOWTIE\_PHIX | Illumina | RTA | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_PHIX\_ILLUMINA\_RTA | Illumina | RTA | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_PHIX | Illumina | RTA | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_PHIX\_ILLUMINA\_RTA | Illumina | RTA | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_PHIX | Illumina | RTA | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_PHIX\_ILLUMINA\_RTA | Illumina | RTA | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_PHIX | Illumina | RTA | Chromosome Fasta Files |
| CHR\_PHIX\_ILLUMINA\_RTA | Illumina | RTA | Chromosome Fasta Files |
| FAIDX\_PHIX | Illumina | RTA | Fasta Index .fai File |
| FAIDX\_PHIX\_ILLUMINA\_RTA | Illumina | RTA | Fasta Index .fai File |
| GENOME\_PHIX | Illumina | RTA | Genome Fasta File |
| GENOME\_PHIX\_ILLUMINA\_RTA | Illumina | RTA | Genome Fasta File |
| PHIX | Illumina | RTA | Main Directory |
| PHIX\_ILLUMINA\_RTA | Illumina | RTA | Main Directory |
| PICARD\_PHIX | Illumina | RTA | Picard .dict File |
| PICARD\_PHIX\_ILLUMINA\_RTA | Illumina | RTA | Picard .dict File |
<span
class="expand-control-icon"><img src="assets/images/icons/grey_arrow_down.png" class="expand-control-image" /></span><span
class="expand-control-text">Pseudomonas\_aeruginosa\_PAO1</span>
| Short Name | Source | Build | Type |
|------------------------------------------------------------|--------|------------|----------------------------|
| BOWTIE\_PSEUDOMONAS\_AERUGINOSA\_PAO1 | NCBI | 2000-09-13 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE\_PSEUDOMONAS\_AERUGINOSA\_PAO1\_NCBI\_2000\_09\_13 | NCBI | 2000-09-13 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_PSEUDOMONAS\_AERUGINOSA\_PAO1 | NCBI | 2000-09-13 | Bwa\|Bowtie\|Bowtie2 Index |
| BOWTIE2\_PSEUDOMONAS\_AERUGINOSA\_PAO1\_NCBI\_2000\_09\_13 | NCBI | 2000-09-13 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_PSEUDOMONAS\_AERUGINOSA\_PAO1 | NCBI | 2000-09-13 | Bwa\|Bowtie\|Bowtie2 Index |
| BWA\_PSEUDOMONAS\_AERUGINOSA\_PAO1\_NCBI\_2000\_09\_13 | NCBI | 2000-09-13 | Bwa\|Bowtie\|Bowtie2 Index |
| CHR\_PSEUDOMONAS\_AERUGINOSA\_PAO1 | NCBI | 2000-09-13 | Chromosome Fasta Files |
| CHR\_PSEUDOMONAS\_AERUGINOSA\_PAO1\_NCBI\_2000\_09\_13 | NCBI | 2000-09-13 | Chromosome Fasta Files |
| FAIDX\_PSEUDOMONAS\_AERUGINOSA\_PAO1 | NCBI | 2000-09-13 | Fasta Index .fai File |
| FAIDX\_PSEUDOMONAS\_AERUGINOSA\_PAO1\_NCBI\_2000\_09\_13 | NCBI | 2000-09-13 | Fasta Index .fai File |
| GENOME\_PSEUDOMONAS\_AERUGINOSA\_PAO1 | NCBI | 2000-09-13 | Genome Fasta File |
| GENOME\_PSEUDOMONAS\_AERUGINOSA\_PAO1\_NCBI\_2000\_09\_13 | NCBI | 2000-09-13 | Genome Fasta File |
| PICARD\_PSEUDOMONAS\_AERUGINOSA\_PAO1 | NCBI | 2000-09-13 | Picard .dict File |
| PICARD\_PSEUDOMONAS\_AERUGINOSA\_PAO1\_NCBI\_2000\_09\_13 | NCBI | 2000-09-13 | Picard .dict File |
| PSEUDOMONAS\_AERUGINOSA\_PAO1 | NCBI | 2000-09-13 | Main Directory |
| PSEUDOMONAS\_AERUGINOSA\_PAO1\_NCBI\_2000\_09\_13