Commit 72cd82cc authored by Natasha Pavlovikj's avatar Natasha Pavlovikj Committed by Adam Caprez
Browse files

Add table to biodata module

parent c3f8cd7f
......@@ -7,7 +7,7 @@ weight = "52"
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.
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.
......@@ -79,5 +79,8 @@ cp /scratch/blast_nucleotide.results .
{{% /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:
[Organisms]({{<relref "organisms" >}})
### Available 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 |