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list-of-software [2019/07/15 18:47]
aorth
list-of-software [2019/12/15 13:11] (current)
aorth
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 |[[bam-readcount-software|bam-readcount]]|0.8.0|''​module load bam-readcount/​0.8.0''​| | |[[bam-readcount-software|bam-readcount]]|0.8.0|''​module load bam-readcount/​0.8.0''​| |
 |[[bamtools-software|bamtools]]|2.5.1|''​module load bamtools/​2.5.1''​| | |[[bamtools-software|bamtools]]|2.5.1|''​module load bamtools/​2.5.1''​| |
 +|[[barrnap-software|barrnap]]|0.9|''​module load barrnap/​0.9''​| |
 |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]]|3.1.2|''​module load beagle/3.1.2''​| | 
-|[[beast-software|beast]]|1.10.2|''​module load beast/1.10.2''​| |+|[[beast-software|beast]]|1.10.4|''​module load beast/1.10.4''​| |
 |[[bedops-software|bedops]]|2.4.29|''​module load bedops/​2.4.29''​| | |[[bedops-software|bedops]]|2.4.29|''​module load bedops/​2.4.29''​| |
-|[[bedtools-software|bedtools]]|2.25.0|''​module load bedtools/2.25.0''​| |+|[[bedtools-software|bedtools]]|2.29.0|''​module load bedtools/2.29.0''​| |
 |[[binpacker-software|binpacker]]|1.0|''​module load binpacker/​1.0''​| | |[[binpacker-software|binpacker]]|1.0|''​module load binpacker/​1.0''​| |
 |[[bioperl-software|bioperl]]|1.7.2|''​module load bioperl/​1.7.2''​| | |[[bioperl-software|bioperl]]|1.7.2|''​module load bioperl/​1.7.2''​| |
Line 108: Line 110:
 |[[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 138: Line 141:
 |[[mapsplice-software|mapsplice]]|2.2.0|''​module load mapsplice/​2.2.0''​| | |[[mapsplice-software|mapsplice]]|2.2.0|''​module load mapsplice/​2.2.0''​| |
 |[[marginalign-software|marginalign]]|git-2369dafd|''​module load marginalign/​git-2369dafd''​| | |[[marginalign-software|marginalign]]|git-2369dafd|''​module load marginalign/​git-2369dafd''​| |
 +|[[marginpolish-software|marginpolish]]|1.0.0|''​module load marginpolish/​1.0.0''​| |
 |[[mash-software|mash]]|2.0|''​module load mash/​2.0''​| | |[[mash-software|mash]]|2.0|''​module load mash/​2.0''​| |
 |[[masurca-software|masurca]]|3.3.1|''​module load masurca/​3.3.1''​| | |[[masurca-software|masurca]]|3.3.1|''​module load masurca/​3.3.1''​| |
Line 144: Line 148:
 |[[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''​| |
 |[[megax-software|megax]]|10.0.5|''​module load megax/​10.0.5''​| | |[[megax-software|megax]]|10.0.5|''​module load megax/​10.0.5''​| |
 |[[metabat-software|metabat]]|2.12.1|''​module load metabat/​2.12.1''​| | |[[metabat-software|metabat]]|2.12.1|''​module load metabat/​2.12.1''​| |
 +|[[metaphlan2-software|metaphlan2]]|2.9.5|''​module load metaphlan2/​2.9.5''​| |
 |[[metis-software|metis]]|5.1.0|''​module load metis/​5.1.0''​| | |[[metis-software|metis]]|5.1.0|''​module load metis/​5.1.0''​| |
 |[[migec-software|migec]]|1.2.4a|''​module load migec/​1.2.4a''​| | |[[migec-software|migec]]|1.2.4a|''​module load migec/​1.2.4a''​| |
Line 156: Line 162:
 |[[mira-software#​v4.0.2|mira ]]|4.0.2|''​module load mira/​4.0.2''​| | |[[mira-software#​v4.0.2|mira ]]|4.0.2|''​module load mira/​4.0.2''​| |
 |[[mitools-software|mitools]]|1.4|''​module load mitools/​1.4''​| | |[[mitools-software|mitools]]|1.4|''​module load mitools/​1.4''​| |
-|[[mixcr-software|mixcr]]|2.0.1|''​module load mixcr/2.0.1''​| |+|[[mixcr-software|mixcr]]|3.0.11|''​module load mixcr/3.0.11''​| |
 |mkatari-ilri|latest|''​module load mkatari-ilri/​latest''​| | |mkatari-ilri|latest|''​module load mkatari-ilri/​latest''​| |
 |[[modeller-software|modeller]]|9.17|''​module load modeller/​9.17''​| | |[[modeller-software|modeller]]|9.17|''​module load modeller/​9.17''​| |
Line 173: Line 179:
 |novacraft|3.02.07|''​module load novacraft/​3.02.07''​| | |novacraft|3.02.07|''​module load novacraft/​3.02.07''​| |
 |[[oases-software|oases]]|0.2.08|''​module load oases/​0.2.08''​| | |[[oases-software|oases]]|0.2.08|''​module load oases/​0.2.08''​| |
-|[[ocaml-software#​v4.02.1|ocaml ]]|4.02.1|''​module load ocaml/​4.02.1''​| | +|[[ocaml-software#​v4.02.1|ocaml]]|4.02.1|''​module load ocaml/​4.02.1''​| | 
-|[[opam-software#​v1.2.0|opam ]]|1.2.0|''​module load opam/​1.2.0''​| |+|[[opam-software#​v1.2.0|opam]]|1.2.0|''​module load opam/​1.2.0''​| |
 |orthomcl|2.0.3|''​module load orthomcl/​2.0.3''​| | |orthomcl|2.0.3|''​module load orthomcl/​2.0.3''​| |
 +|[[orp-software|Oyster River Protocol]]|2.2.8|''​module load orp/​2.2.8''​| |
 |[[pagan-software|pagan]]|0.61|''​module load pagan/​0.61''​| | |[[pagan-software|pagan]]|0.61|''​module load pagan/​0.61''​| |
 |[[pairfq-software|pairfq]]|0.14.4|''​module load pairfq/​0.14.4''​| | |[[pairfq-software|pairfq]]|0.14.4|''​module load pairfq/​0.14.4''​| |
Line 194: Line 201:
 |[[pilon-software|pilon]]|1.23|''​module load pilon/​1.23''​| | |[[pilon-software|pilon]]|1.23|''​module load pilon/​1.23''​| |
 |[[platanus-software|platanus]]|1.2.1|''​module load platanus/​1.2.1''​| | |[[platanus-software|platanus]]|1.2.1|''​module load platanus/​1.2.1''​| |
-|[[plink-software|plink]]|1.9|''​module load plink/1.9''​| |+|[[plink-software|plink]]|2.00-alpha|''​module load plink/2.00-alpha''​| |
 |[[polyphen-software|polyphen]]|2.2.2|''​module load polyphen/​2.2.2''​| | |[[polyphen-software|polyphen]]|2.2.2|''​module load polyphen/​2.2.2''​| |
 |[[prank-software|prank]]|170427|''​module load prank/​170427''​| | |[[prank-software|prank]]|170427|''​module load prank/​170427''​| |
Line 204: Line 211:
 |qdd|3_beta|''​module load qdd/​3_beta''​| | |qdd|3_beta|''​module load qdd/​3_beta''​| |
 |[[qiime-software|qiime]]|1.9.1|''​module load qiime/​1.9.1''​| | |[[qiime-software|qiime]]|1.9.1|''​module load qiime/​1.9.1''​| |
-|[[qiime2-software|qiime2]]|2018.6|''​module load qiime2/2018.6''​| |+|[[qiime2-software|qiime2]]|2019.10|''​module load qiime2/2019.10''​| |
 |[[quast-software|quast]]|4.5|''​module load quast/​4.5''​| | |[[quast-software|quast]]|4.5|''​module load quast/​4.5''​| |
 +|[[quickmerge-software|quickmerge]]|0.3|''​module load quickmerge/​0.3''​| |
 |[[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 229:
 |[[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 228: Line 236:
 |[[seroba-software|seroba]]|1.0.0|''​module load seroba/​1.0.0''​| | |[[seroba-software|seroba]]|1.0.0|''​module load seroba/​1.0.0''​| |
 |seq_crumbs|0.1.8|''​module load seq_crumbs/​0.1.8''​| | |seq_crumbs|0.1.8|''​module load seq_crumbs/​0.1.8''​| |
-|[[seqkit-software|seqkit]]|0.7.2|''​module load seqkit/0.7.2''​| |+|[[seqkit-software|seqkit]]|0.11.0|''​module load seqkit/0.11.0''​| |
 |[[seqqs-software|seqqs]]|git-3d053750|''​module load seqqs/​git-3d053750''​| | |[[seqqs-software|seqqs]]|git-3d053750|''​module load seqqs/​git-3d053750''​| |
-|[[seqtk-software|seqtk]]|1.2-r102|''​module load seqtk/1.2-r102''​| |+|[[seqtk-software|seqtk]]|1.3|''​module load seqtk/1.3''​| |
 |[[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]]|0.3.0|''​module load shasta/​0.3.0''​| |
 |[[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 237: Line 246:
 |[[smalt-software|smalt]]|0.7.6|''​module load smalt/​0.7.6''​| | |[[smalt-software|smalt]]|0.7.6|''​module load smalt/​0.7.6''​| |
 |[[smartdenovo-software|smartdenovo]]|git-5cc1356b|''​module load smartdenovo/​git-5cc1356b''​| | |[[smartdenovo-software|smartdenovo]]|git-5cc1356b|''​module load smartdenovo/​git-5cc1356b''​| |
 +|[[snakemake-software|snakemake]]|5.7.0|''​module load snakemake/​5.7.0''​| |
 |snowhite|1.1.4|''​module load snowhite/​1.1.4''​| | |snowhite|1.1.4|''​module load snowhite/​1.1.4''​| |
 |[[snpeff-software|SnpEff & SnpSift]]|4.1g|''​module load snpeff/​4.1g''​| | |[[snpeff-software|SnpEff & SnpSift]]|4.1g|''​module load snpeff/​4.1g''​| |
Line 252: Line 262:
 |splitstree|4.11.3|''​module load splitstree/​4.11.3''​| | |splitstree|4.11.3|''​module load splitstree/​4.11.3''​| |
 |spread|1.0.6|''​module load spread/​1.0.6''​| | |spread|1.0.6|''​module load spread/​1.0.6''​| |
-|[[sratoolkit-software|sratoolkit]]|2.8.2|''​module load sratoolkit/​2.8.2''​| |+|[[sratoolkit-software|sratoolkit]]|2.10.0|''​module load sratoolkit/​2.10.0''​| |
 |[[sspace-software|sspace]]|3.0|''​module load sspace/​3.0''​| | |[[sspace-software|sspace]]|3.0|''​module load sspace/​3.0''​| |
 |[[sspace-longread-software|sspace-longread]]|1.1|''​module load sspace-longread/​1.1''​| | |[[sspace-longread-software|sspace-longread]]|1.1|''​module load sspace-longread/​1.1''​| |
 |[[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''​| |
list-of-software.1563205649.txt.gz · Last modified: 2019/07/15 18:47 by aorth