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list-of-software [2019/07/09 17:23]
aorth
list-of-software [2019/09/11 15:57] (current)
aorth
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 |[[bamtools-software|bamtools]]|2.5.1|''​module load bamtools/​2.5.1''​| | |[[bamtools-software|bamtools]]|2.5.1|''​module load bamtools/​2.5.1''​| |
 |bayescan|2.1|''​module load bayescan/​2.1''​| | |bayescan|2.1|''​module load bayescan/​2.1''​| |
 +|[[bbmap-software|bbmap]]|38.67|''​module load bbmap/​38.67''​| |
 |[[bcftools-software|bcftools]]|1.8|''​module load bcftools/​1.8''​| | |[[bcftools-software|bcftools]]|1.8|''​module load bcftools/​1.8''​| |
 |[[beagle-software|beagle]]|3.0.2|''​module load beagle/​3.0.2''​| | |[[beagle-software|beagle]]|3.0.2|''​module load beagle/​3.0.2''​| |
Line 108: Line 109:
 |[[hpg-variant-software|hpg-variant]]|1.0|''​module load hpg-variant/​1.0''​| | |[[hpg-variant-software|hpg-variant]]|1.0|''​module load hpg-variant/​1.0''​| |
 |[[hisat2-software|hisat2]]|2.1.0|''​module load hisat2/​2.1.0''​| | |[[hisat2-software|hisat2]]|2.1.0|''​module load hisat2/​2.1.0''​| |
-|[[htseq-software|htseq]]|0.6.1|''​module load htseq/0.6.1''​| | +|[[htseq-software|htseq]]|0.9.1|''​module load htseq/0.9.1''​| | 
-|[[htslib-software|htslib]]|1.8|''​module load htslib/1.8''​| |+|[[htslib-software|htslib]]|1.9|''​module load htslib/1.9''​| |
 |[[igblast-software|igblast]]|1.6.0|''​module load igblast/​1.6.0''​| | |[[igblast-software|igblast]]|1.6.0|''​module load igblast/​1.6.0''​| |
 |[[igrec-software|igrec]]|3.0.0|''​module load igrec/​3.0.0''​| | |[[igrec-software|igrec]]|3.0.0|''​module load igrec/​3.0.0''​| |
 |[[igv-software|igv]]|2.4.5|''​module load igv/​2.4.5''​| | |[[igv-software|igv]]|2.4.5|''​module load igv/​2.4.5''​| |
 |[[igvtools-software|igvtools]]|2.3.98|''​module load igvtools/​2.3.98''​| | |[[igvtools-software|igvtools]]|2.3.98|''​module load igvtools/​2.3.98''​| |
 +|[[infernal-software|infernal]]|1.1.2|''​module load infernal/​1.1.2''​| |
 |[[interproscan-software|interproscan]]|5.13|''​module load interproscan/​5.13''​| | |[[interproscan-software|interproscan]]|5.13|''​module load interproscan/​5.13''​| |
 |i-tasser|latest|''​module load i-tasser/​latest''​| | |i-tasser|latest|''​module load i-tasser/​latest''​| |
Line 126: Line 128:
 |[[kmergenie-software|kmergenie]]|1.7038|''​module load kmergenie/​1.7038''​| | |[[kmergenie-software|kmergenie]]|1.7038|''​module load kmergenie/​1.7038''​| |
 |[[kmer-ssr-software|kmer-ssr]]|git-4043c0e7|''​module load kmer-ssr/​git-4043c0e7''​| | |[[kmer-ssr-software|kmer-ssr]]|git-4043c0e7|''​module load kmer-ssr/​git-4043c0e7''​| |
-|[[kraken-software|kraken]]|0.10.5|''​module load kraken/0.10.5''​| |+|[[kraken-software|kraken]]|2.0.8-beta|''​module load kraken/2.0.8-beta''​| |
 |krona|2.4|''​module load krona/​2.4''​| | |krona|2.4|''​module load krona/​2.4''​| |
 |lamp|2.5|''​module load lamp/​2.5''​| | |lamp|2.5|''​module load lamp/​2.5''​| |
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 |[[mcl-software|mcl]]|14-137|''​module load mcl/​14-137''​| | |[[mcl-software|mcl]]|14-137|''​module load mcl/​14-137''​| |
 |[[mecat-software|MECAT]]|git-d04bfa84|''​module load MECAT/​git-d04bfa84''​| | |[[mecat-software|MECAT]]|git-d04bfa84|''​module load MECAT/​git-d04bfa84''​| |
 +|[[medaka-software|medaka]]|0.8.2|''​module load medaka/​0.8.2''​| |
 |[[megahit-software|megahit]]|1.1.4|''​module load megahit/​1.1.4''​| | |[[megahit-software|megahit]]|1.1.4|''​module load megahit/​1.1.4''​| |
 |megan|4.70.4|''​module load megan/​4.70.4''​| | |megan|4.70.4|''​module load megan/​4.70.4''​| |
Line 207: Line 210:
 |[[quast-software|quast]]|4.5|''​module load quast/​4.5''​| | |[[quast-software|quast]]|4.5|''​module load quast/​4.5''​| |
 |[[quorum-software|Quorum]]|1.1.1|''​module load quorum/​1.1.1''​| | |[[quorum-software|Quorum]]|1.1.1|''​module load quorum/​1.1.1''​| |
-|[[r-software|R]]|3.5.2|''​module load R/3.5''​| |+|[[r-software|R]]|3.6.1|''​module load R/3.6''​| |
 |[[racon-software|racon]]|1.3.1|''​module load racon/​1.3.1''​| | |[[racon-software|racon]]|1.3.1|''​module load racon/​1.3.1''​| |
 |[[rmblast-software|rmblast]]|2.2.28|''​module load rmblast/​2.2.28''​| | |[[rmblast-software|rmblast]]|2.2.28|''​module load rmblast/​2.2.28''​| |
Line 221: Line 224:
 |[[rseqc-software|rseqc]]|2.6.4|''​module load rseqc/​2.6.4''​| | |[[rseqc-software|rseqc]]|2.6.4|''​module load rseqc/​2.6.4''​| |
 |[[ruby-software|ruby]]|2.2.3|''​module load ruby/​2.2.3''​| | |[[ruby-software|ruby]]|2.2.3|''​module load ruby/​2.2.3''​| |
-|[[samtools-software|samtools]]|1.8|''​module load samtools/1.8''​| |+|[[samtools-software|samtools]]|1.9|''​module load samtools/1.9''​| |
 |[[sailfish-software|sailfish]]|0.9.2|''​module load sailfish/​0.9.2''​| | |[[sailfish-software|sailfish]]|0.9.2|''​module load sailfish/​0.9.2''​| |
 |[[salmon-software|salmon]]|0.9.1|''​module load salmon/​0.9.1''​| | |[[salmon-software|salmon]]|0.9.1|''​module load salmon/​0.9.1''​| |
Line 232: Line 235:
 |[[seqtk-software|seqtk]]|1.2-r102|''​module load seqtk/​1.2-r102''​| | |[[seqtk-software|seqtk]]|1.2-r102|''​module load seqtk/​1.2-r102''​| |
 |[[shannon-software|shannon]]|0.0.2|''​module load shannon/​0.0.2''​| | |[[shannon-software|shannon]]|0.0.2|''​module load shannon/​0.0.2''​| |
 +|[[shasta-software|shasta]]|0.2.0|''​module load shasta/​0.2.0''​| |
 |[[sickle-software|sickle]]|1.33|''​module load sickle/​1.33''​| | |[[sickle-software|sickle]]|1.33|''​module load sickle/​1.33''​| |
 |[[sift-software|sift]]|4.0.3b|''​module load sift/​4.0.3b''​| | |[[sift-software|sift]]|4.0.3b|''​module load sift/​4.0.3b''​| |
Line 257: Line 261:
 |[[stacks-software|stacks]]|1.24|''​module load stacks/​1.24''​| | |[[stacks-software|stacks]]|1.24|''​module load stacks/​1.24''​| |
 |staden|2.0.0b8|''​module load staden/​2.0.0b8''​| | |staden|2.0.0b8|''​module load staden/​2.0.0b8''​| |
-|[[star-software|star]]|2.5.3a|''​module load star/2.5.3a''​| |+|[[star-software|star]]|2.7.1a|''​module load star/2.7.1a''​| |
 |[[structure-software|structure]]|2.3.4|''​module load structure/​2.3.4''​| ​ | |[[structure-software|structure]]|2.3.4|''​module load structure/​2.3.4''​| ​ |
 |[[stringtie-software|stringtie]]|1.3.4d|''​module load stringtie/​1.3.4d''​| | |[[stringtie-software|stringtie]]|1.3.4d|''​module load stringtie/​1.3.4d''​| |
Line 290: Line 294:
 |[[whatshap-software|whatshap]]|0.16|''​module load whatshap/​0.16''​| | |[[whatshap-software|whatshap]]|0.16|''​module load whatshap/​0.16''​| |
 |[[wise-software|wise]]|2.4.1|''​module load wise/​2.4.1''​| | |[[wise-software|wise]]|2.4.1|''​module load wise/​2.4.1''​| |
 +|[[wtdbg2-software|wtdbg2]]|2.4|''​module load wtdbg2/​2.4''​| |
  
 The source code for all environment modules can be found in [[https://​github.com/​ilri/​hpc-environment-modules|ILRI'​s GitHub repository]]. The source code for all environment modules can be found in [[https://​github.com/​ilri/​hpc-environment-modules|ILRI'​s GitHub repository]].
list-of-software.1562682230.txt.gz · Last modified: 2019/07/09 17:23 by aorth