list-of-software
Differences
This shows you the differences between two versions of the page.
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list-of-software [2022/03/14 11:45] – aorth | list-of-software [2023/09/06 06:03] – aorth | ||
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|[[angsd-software|angsd]]|0.910|'' | |[[angsd-software|angsd]]|0.910|'' | ||
|[[annovar-software|annovar]]|2016-02-01|'' | |[[annovar-software|annovar]]|2016-02-01|'' | ||
+ | |[[antismash-software|antismash]]|7.0.0|'' | ||
|[[any2fasta-software|any2fasta]]|0.4.2|'' | |[[any2fasta-software|any2fasta]]|0.4.2|'' | ||
|apt|1.14.3|'' | |apt|1.14.3|'' | ||
|[[arb-software|arb]]|6.0.3|'' | |[[arb-software|arb]]|6.0.3|'' | ||
|[[artemis-software|artemis]]|16.0.0|'' | |[[artemis-software|artemis]]|16.0.0|'' | ||
+ | |[[artic-software|artic]]|1.2.3|'' | ||
+ | |[[artic-tools-software|artic-tools]]|0.3.1|'' | ||
|[[augustus-software|augustus]]|3.3|'' | |[[augustus-software|augustus]]|3.3|'' | ||
|[[awscli-software|awscli]]|2.4.0|'' | |[[awscli-software|awscli]]|2.4.0|'' | ||
Line 30: | Line 33: | ||
|bayescan|2.1|'' | |bayescan|2.1|'' | ||
|[[bbmap-software|bbmap]]|38.95|'' | |[[bbmap-software|bbmap]]|38.95|'' | ||
- | |[[bcftools-software|bcftools]]|1.13|'' | + | |[[bcftools-software|bcftools]]|1.15.1|'' |
|bcl2fastq|2.20.0.422|'' | |bcl2fastq|2.20.0.422|'' | ||
|[[beagle-software|beagle]]|3.1.2|'' | |[[beagle-software|beagle]]|3.1.2|'' | ||
Line 43: | Line 46: | ||
|[[blast-software|blast]]|2.12.0+|'' | |[[blast-software|blast]]|2.12.0+|'' | ||
|[[blobtools-software|blobtools]]|0.9.19.3|'' | |[[blobtools-software|blobtools]]|0.9.19.3|'' | ||
- | |blat|06-Aug-2013|'' | + | |[[blat-software|blat]]|37x1|'' |
- | |[[bowtie-software|bowtie1 ]]|1.2.3|'' | + | |[[bmtagger-software|bmtagger]]|0.3.102.4|'' |
- | |[[bowtie2-software|bowtie2 ]]|2.3.4.1|'' | + | |[[bowtie-software|bowtie1]]|1.2.3|'' |
+ | |[[bowtie2-software|bowtie2]]|2.5.0|'' | ||
|[[brig-software|brig]]|0.95|'' | |[[brig-software|brig]]|0.95|'' | ||
|[[busco-software|BUSCO ]]|5.2.2|'' | |[[busco-software|BUSCO ]]|5.2.2|'' | ||
Line 53: | Line 57: | ||
|[[canu-software|canu]]|1.8|'' | |[[canu-software|canu]]|1.8|'' | ||
|cap3|latest|'' | |cap3|latest|'' | ||
+ | |[[ccmetagen-software|ccmetagen]]|1.4.0|'' | ||
|[[cd-hit-software|cd-hit]]|4.8.1|'' | |[[cd-hit-software|cd-hit]]|4.8.1|'' | ||
|[[cegma-software|cegma]]|v2.5|'' | |[[cegma-software|cegma]]|v2.5|'' | ||
Line 58: | Line 63: | ||
|censor|4.2.28|'' | |censor|4.2.28|'' | ||
|[[centrifuge-software|centrifuge]]|1.0.4|'' | |[[centrifuge-software|centrifuge]]|1.0.4|'' | ||
- | |[[changeo-software|changeo]]|1.0.0|'' | + | |[[changeo-software|changeo]]|1.2.0|'' |
|[[checkm-software|checkm]]|1.1.2|'' | |[[checkm-software|checkm]]|1.1.2|'' | ||
|[[circos-software|circos]]|0.69-9|'' | |[[circos-software|circos]]|0.69-9|'' | ||
Line 75: | Line 80: | ||
|[[dextractor-software|dextractor]]|git-a7f50c52|'' | |[[dextractor-software|dextractor]]|git-a7f50c52|'' | ||
|dendroscope|2.7.4|'' | |dendroscope|2.7.4|'' | ||
- | |[[diamond-software|diamond]]|0.9.9|'' | + | |[[diamond-software|diamond]]|2.0.14|'' |
+ | |[[dorado-software|dorado]]|0.3.4|'' | ||
|[[drep-software|drep]]|2.5.4|'' | |[[drep-software|drep]]|2.5.4|'' | ||
|[[ea-utils-software|ea-utils]]|1.04.807|'' | |[[ea-utils-software|ea-utils]]|1.04.807|'' | ||
+ | |[[eagle-software|eagle]]|2.4.1|'' | ||
|[[edirect-software|edirect]]| 7.80 | '' | |[[edirect-software|edirect]]| 7.80 | '' | ||
+ | |[[eggnog-mapper-software|eggnog-mapper]]| 2.1.9 | '' | ||
|eigenstrat|3.0|'' | |eigenstrat|3.0|'' | ||
+ | |[[emblmygff3-software|emblmygff3]]|2.1|'' | ||
|[[emboss-software|emboss]]|6.6.0|'' | |[[emboss-software|emboss]]|6.6.0|'' | ||
|[[easer-software|easer]]|1.7.0|'' | |[[easer-software|easer]]|1.7.0|'' | ||
|est2uni|latest|'' | |est2uni|latest|'' | ||
- | |[[ete-software|ete]]|3.1.2|'' | ||
|[[exabayes-software|exabayes]]|1.4.1|'' | |[[exabayes-software|exabayes]]|1.4.1|'' | ||
|[[express-software|express]]|1.5.1|'' | |[[express-software|express]]|1.5.1|'' | ||
+ | |[[falco-software|falco]]|0.3.0|'' | ||
|[[falcon-phase-software|falcon-phase]]|git-7c50154e|'' | |[[falcon-phase-software|falcon-phase]]|git-7c50154e|'' | ||
|[[fastANI-software|fastANI]]|1.3|'' | |[[fastANI-software|fastANI]]|1.3|'' | ||
Line 94: | Line 103: | ||
|[[fasttree-software|fasttree]]|2.1.11|'' | |[[fasttree-software|fasttree]]|2.1.11|'' | ||
|[[fastx-toolkit-software|fastx_toolkit]]|0.0.13|'' | |[[fastx-toolkit-software|fastx_toolkit]]|0.0.13|'' | ||
+ | |[[figaro-software|figaro]]|git-337aa9|'' | ||
|figtree|1.4.0|'' | |figtree|1.4.0|'' | ||
|[[flapjack-software|flapjack ]]|1.18.04.23-beta|'' | |[[flapjack-software|flapjack ]]|1.18.04.23-beta|'' | ||
Line 104: | Line 114: | ||
|[[fraggenescan-software|FragGeneScan ]]|1.30|'' | |[[fraggenescan-software|FragGeneScan ]]|1.30|'' | ||
|[[freebayes-software|freebayes]]|1.3.4|'' | |[[freebayes-software|freebayes]]|1.3.4|'' | ||
- | |[[funannotate-software|funannotate]]|1.8.7|'' | + | |[[funannotate-software|funannotate]]|1.8.15|See software page| | |
|[[gassflow-software|GassFlow ]]|1.0|'' | |[[gassflow-software|GassFlow ]]|1.0|'' | ||
- | |[[gatk-software|gatk]]|4.2.2.0|'' | + | |[[gatk-software|gatk]]|4.4.0.0|'' |
|[[gapfiller-software|gapfiller]]|1.10|'' | |[[gapfiller-software|gapfiller]]|1.10|'' | ||
|[[geneid-software|geneid]]|1.4.4|'' | |[[geneid-software|geneid]]|1.4.4|'' | ||
Line 124: | Line 134: | ||
|[[gtdbtk-software|gtdbtk]]|1.1.1|'' | |[[gtdbtk-software|gtdbtk]]|1.1.1|'' | ||
|[[guidance-software|guidance]]|2.02|'' | |[[guidance-software|guidance]]|2.02|'' | ||
- | |[[guppy-software|guppy]]|5.0.11|'' | + | |[[guppy-software|guppy]]|6.2.1|'' |
|[[halcyon-software|halcyon]]|0.1.1|'' | |[[halcyon-software|halcyon]]|0.1.1|'' | ||
|[[hapflk-software|hapflk]]|1.4|'' | |[[hapflk-software|hapflk]]|1.4|'' | ||
Line 135: | Line 145: | ||
|[[hpg-variant-software|hpg-variant]]|1.0|'' | |[[hpg-variant-software|hpg-variant]]|1.0|'' | ||
|[[hic_qc-software|hic_qc]]|git-1e132fb2|'' | |[[hic_qc-software|hic_qc]]|git-1e132fb2|'' | ||
+ | |[[hifiasm-software|hifiasm]]|0.16.1|'' | ||
|[[hisat2-software|hisat2]]|2.1.0|'' | |[[hisat2-software|hisat2]]|2.1.0|'' | ||
|[[htseq-software|htseq]]|0.9.1|'' | |[[htseq-software|htseq]]|0.9.1|'' | ||
- | |[[htslib-software|htslib]]|1.13|'' | + | |[[htslib-software|htslib]]|1.15.1|'' |
|[[hypo-software|hypo]]|1.0.3|'' | |[[hypo-software|hypo]]|1.0.3|'' | ||
+ | |[[hyphy-software|hyphy]]|2.5.48|'' | ||
|[[idba-software|idba]]|1.1.2|'' | |[[idba-software|idba]]|1.1.2|'' | ||
|[[igblast-software|igblast]]|1.10.0|'' | |[[igblast-software|igblast]]|1.10.0|'' | ||
Line 144: | Line 156: | ||
|[[igrec-software|igrec]]|3.0.0|'' | |[[igrec-software|igrec]]|3.0.0|'' | ||
|[[igsimulator-software|igsimulator]]|git-c3778b74|'' | |[[igsimulator-software|igsimulator]]|git-c3778b74|'' | ||
- | |[[iqtree-software|iqtree]]|1.6.12|'' | + | |[[iqtree-software|iqtree]]|2.2.0|'' |
|[[igv-software|igv]]|2.4.5|'' | |[[igv-software|igv]]|2.4.5|'' | ||
|[[igvtools-software|igvtools]]|2.3.98|'' | |[[igvtools-software|igvtools]]|2.3.98|'' | ||
Line 159: | Line 171: | ||
|[[karect-software|karect]]|1.0|'' | |[[karect-software|karect]]|1.0|'' | ||
|[[kat-software|kat]]|2.3.4|'' | |[[kat-software|kat]]|2.3.4|'' | ||
- | |[[kma-software|kma]]|1.4.0|'' | + | |[[kma-software|kma]]|1.4.11|'' |
|[[kmc-software|kmc]]|3.1.1|'' | |[[kmc-software|kmc]]|3.1.1|'' | ||
+ | |[[kmerfreq-software|kmerfreq]]|git-90fca00d|'' | ||
|[[kmergenie-software|kmergenie]]|1.7038|'' | |[[kmergenie-software|kmergenie]]|1.7038|'' | ||
|[[kmer-ssr-software|kmer-ssr]]|git-4043c0e7|'' | |[[kmer-ssr-software|kmer-ssr]]|git-4043c0e7|'' | ||
- | |[[kraken-software|kraken]]|2.0.8-beta|'' | + | |[[kraken-software|kraken]]|2.1.2|'' |
- | |[[krona-software]]|2.8.1|'' | + | |[[krona-software|krona]]|2.8.1|'' |
|lamp|2.5|'' | |lamp|2.5|'' | ||
|lava|0.1|'' | |lava|0.1|'' | ||
Line 170: | Line 183: | ||
|[[libsvm-software|libsvm]]|3.20|'' | |[[libsvm-software|libsvm]]|3.20|'' | ||
|[[lighter-software|lighter]]|1.1.2|'' | |[[lighter-software|lighter]]|1.1.2|'' | ||
+ | |[[longshot-software|longshot]]|0.4.5|'' | ||
|[[lordec-software|lordec]]|0.9|'' | |[[lordec-software|lordec]]|0.9|'' | ||
|[[ltr_retriever-software|ltr_retriever]]|2.9.0|'' | |[[ltr_retriever-software|ltr_retriever]]|2.9.0|'' | ||
Line 179: | Line 193: | ||
|[[marginpolish-software|marginpolish]]|1.0.0|'' | |[[marginpolish-software|marginpolish]]|1.0.0|'' | ||
|[[mash-software|mash]]|2.2|'' | |[[mash-software|mash]]|2.2|'' | ||
- | |[[masurca-software|masurca]]|3.3.1|'' | + | |[[masurca-software|masurca]]|4.1.0|'' |
|mauve|2.3.1|'' | |mauve|2.3.1|'' | ||
|[[maxbin2-software|maxbin2]]|2.2.7|'' | |[[maxbin2-software|maxbin2]]|2.2.7|'' | ||
Line 192: | Line 206: | ||
|[[metabat-software|metabat]]|2.12.1|'' | |[[metabat-software|metabat]]|2.12.1|'' | ||
|[[metaeuk-software|metaeuk]]|git-9818d1a5|'' | |[[metaeuk-software|metaeuk]]|git-9818d1a5|'' | ||
- | |[[metaphlan-software|metaphlan]]|3.0.13|'' | + | |[[metaphlan-software|metaphlan]]|4.0.6|'' |
|[[metis-software|metis]]|5.1.0|'' | |[[metis-software|metis]]|5.1.0|'' | ||
|[[migec-software|migec]]|1.2.4a|'' | |[[migec-software|migec]]|1.2.4a|'' | ||
|[[migmap-software|migmap]]|1.0.2|'' | |[[migmap-software|migmap]]|1.0.2|'' | ||
|[[miniasm-software|miniasm]]|0.3|'' | |[[miniasm-software|miniasm]]|0.3|'' | ||
- | |[[minimap2-software|minimap2]]|2.22|'' | + | |[[minimac3-software|minimac3]]|2.0.1|'' |
+ | |[[minimac4-software|minimac4]]|1.0.3|'' | ||
+ | |[[minimap2-software|minimap2]]|2.24|'' | ||
|[[minpath-software|MinPath]]|1.0.2|'' | |[[minpath-software|MinPath]]|1.0.2|'' | ||
|[[mira-software# | |[[mira-software# | ||
Line 210: | Line 226: | ||
|mpiblast|1.6.0|'' | |mpiblast|1.6.0|'' | ||
|mrbayes|3.2.2|'' | |mrbayes|3.2.2|'' | ||
- | |[[multiqc-software|multiqc]]|1.6|'' | + | |[[multiqc-software|multiqc]]|1.12|'' |
|[[muscle-software|muscle]]|3.8.1551|'' | |[[muscle-software|muscle]]|3.8.1551|'' | ||
|[[mummer-software|mummer]]|4.0.0rc1|'' | |[[mummer-software|mummer]]|4.0.0rc1|'' | ||
- | |[[nanopolish-software|nanopolish]]|0.10.2|'' | + | |[[nanopolish-software|nanopolish]]|0.14.0|'' |
|[[netmhcpan-software|netmhcpan]]|2.8|'' | |[[netmhcpan-software|netmhcpan]]|2.8|'' | ||
- | |[[nextalign-software|nextalign]]|1.3.0|'' | + | |[[nextalign-software|nextalign]]|1.11.0|'' |
- | |[[nextclade-software|nextclade]]|1.3.0|'' | + | |[[nextclade-software|nextclade]]|2.11.0|'' |
|[[nextclip-software|nextclip]]|1.3.1|'' | |[[nextclip-software|nextclip]]|1.3.1|'' | ||
- | |[[nextflow-software|nextflow]]|21.10 (21.10.6)|'' | + | |[[nextflow-software|nextflow]]|23.04 (23.04.2)|'' |
+ | |[[ngs-tools-software|ngs-tools]]|3.0.0|'' | ||
|[[ntcard-software|ntCard]]|1.0.0|'' | |[[ntcard-software|ntCard]]|1.0.0|'' | ||
|[[ngmlr-software|ngmlr]]|0.2.7|'' | |[[ngmlr-software|ngmlr]]|0.2.7|'' | ||
|[[ngsqctoolkit-software|ngsqctoolkit]]|2.3.3|'' | |[[ngsqctoolkit-software|ngsqctoolkit]]|2.3.3|'' | ||
|[[nQuire-software|nQuire]]|git-a990a88e|'' | |[[nQuire-software|nQuire]]|git-a990a88e|'' | ||
- | |[[nvtop-software|nvtop]]|1.2.2|'' | + | |[[nvtop-software|nvtop]]|2.0.2|'' |
|novacraft|3.02.07|'' | |novacraft|3.02.07|'' | ||
|[[oases-software|oases]]|0.2.08|'' | |[[oases-software|oases]]|0.2.08|'' | ||
|[[ocaml-software# | |[[ocaml-software# | ||
+ | |[[oligoarrayaux-software|oligoarrayaux]]|3.8.1|'' | ||
|[[opam-software# | |[[opam-software# | ||
|orthomcl|2.0.3|'' | |orthomcl|2.0.3|'' | ||
Line 233: | Line 251: | ||
|[[pairfq-software|pairfq]]|0.14.4|'' | |[[pairfq-software|pairfq]]|0.14.4|'' | ||
|[[paml-software|paml]]|4.9a|'' | |[[paml-software|paml]]|4.9a|'' | ||
+ | |[[panaroo-software|panaroo]]|1.3.3|'' | ||
|[[pandaseq-software|pandaseq]]|2.8.1|'' | |[[pandaseq-software|pandaseq]]|2.8.1|'' | ||
|[[pasta-software|pasta]]|d939adb2|'' | |[[pasta-software|pasta]]|d939adb2|'' | ||
Line 245: | Line 264: | ||
|[[phylip-software|phylip]]|3.696|'' | |[[phylip-software|phylip]]|3.696|'' | ||
|[[phyml-software|phyml]]|3.3.20180621|'' | |[[phyml-software|phyml]]|3.3.20180621|'' | ||
- | |[[picard-software|picard]]|2.26.1|'' | + | |[[picard-software|picard]]|2.27.5|'' |
|[[picrust-software# | |[[picrust-software# | ||
|[[pilon-software|pilon]]|1.23|'' | |[[pilon-software|pilon]]|1.23|'' | ||
- | |[[plasmidid-software|plasmidid]]|1.6.3|'' | + | |[[plasmidid-software|plasmidid]]|1.6.5|'' |
|[[platanus-software|platanus]]|1.2.1|'' | |[[platanus-software|platanus]]|1.2.1|'' | ||
|[[plink-software|plink]]|2.00-alpha|'' | |[[plink-software|plink]]|2.00-alpha|'' | ||
|[[polyphen-software|polyphen]]|2.2.2|'' | |[[polyphen-software|polyphen]]|2.2.2|'' | ||
|[[poplddecay-software|poplddecay]]|3.41|'' | |[[poplddecay-software|poplddecay]]|3.41|'' | ||
- | |[[porechop-software|porechop]]|0.2.4|'' | + | |[[porechop-software|porechop]]|0.3.2pre|'' |
|[[pplacer-software|pplacer]]|1.1.alpha19|'' | |[[pplacer-software|pplacer]]|1.1.alpha19|'' | ||
|[[prank-software|prank]]|170427|'' | |[[prank-software|prank]]|170427|'' | ||
|[[presto-software|presto]]|0.5.13|'' | |[[presto-software|presto]]|0.5.13|'' | ||
+ | |[[primalscheme-software|primalscheme]]|1.3.2|'' | ||
|primer3|2.3.6|'' | |primer3|2.3.6|'' | ||
|[[prinseq-software|prinseq]]|0.20.4|'' | |[[prinseq-software|prinseq]]|0.20.4|'' | ||
Line 263: | Line 283: | ||
|[[provean-software|provean]]|1.1.5|'' | |[[provean-software|provean]]|1.1.5|'' | ||
|[[purge-haplotigs-software|purge_haplotigs]]|1.1.1|'' | |[[purge-haplotigs-software|purge_haplotigs]]|1.1.1|'' | ||
- | |[[python-software|python]]|3.8.11|'' | + | |[[python-software|python]]|3.9.17|'' |
|qdd|3_beta|'' | |qdd|3_beta|'' | ||
|[[qiime-software|qiime]]|1.9.1|'' | |[[qiime-software|qiime]]|1.9.1|'' | ||
Line 270: | Line 290: | ||
|[[quickmerge-software|quickmerge]]|0.3|'' | |[[quickmerge-software|quickmerge]]|0.3|'' | ||
|[[quorum-software|Quorum]]|1.1.1|'' | |[[quorum-software|Quorum]]|1.1.1|'' | ||
- | |[[r-software|R]]|4.0.5|'' | + | |[[r-software|R]]|4.3.1|'' |
- | |[[racon-software|racon]]|1.3.1|'' | + | |[[racon-software|racon]]|1.5.0|'' |
- | |[[rmblast-software|rmblast]]|2.11.0|'' | + | |
|[[rapsearch-software|rapsearch]]|2.22|'' | |[[rapsearch-software|rapsearch]]|2.22|'' | ||
|[[ratt-software|RATT]]|r18|'' | |[[ratt-software|RATT]]|r18|'' | ||
|[[raxml-software|RAxML]]|8.2.12|'' | |[[raxml-software|RAxML]]|8.2.12|'' | ||
|[[ray-software|ray]]|2.3.1|'' | |[[ray-software|ray]]|2.3.1|'' | ||
+ | |[[rcorrector-software|rcorrector]]|1.0.5|'' | ||
|[[rdp-classifier-software|RDP Classifier]]|2.11|'' | |[[rdp-classifier-software|RDP Classifier]]|2.11|'' | ||
|[[recon-software|recon]]|1.08|'' | |[[recon-software|recon]]|1.08|'' | ||
Line 282: | Line 302: | ||
|[[repeatmodeler-software|repeatmodeler]]|2.0.1|'' | |[[repeatmodeler-software|repeatmodeler]]|2.0.1|'' | ||
|[[repseqio-software|repseqio]]|1.3.3|'' | |[[repseqio-software|repseqio]]|1.3.3|'' | ||
+ | |[[rgi-software|rgi]]|6.0.2|'' | ||
+ | |[[rmblast-software|rmblast]]|2.11.0|'' | ||
|[[root-software|root]]|6.08.06|'' | |[[root-software|root]]|6.08.06|'' | ||
|[[rrnaselector-software|rRNASelector]]|1.1|'' | |[[rrnaselector-software|rRNASelector]]|1.1|'' | ||
Line 287: | Line 309: | ||
|[[rseqc-software|rseqc]]|2.6.4|'' | |[[rseqc-software|rseqc]]|2.6.4|'' | ||
|[[ruby-software|ruby]]|2.2.3|'' | |[[ruby-software|ruby]]|2.2.3|'' | ||
- | |[[samtools-software|samtools]]|1.13|'' | + | |[[samtools-software|samtools]]|1.15.1|'' |
|[[sailfish-software|sailfish]]|0.9.2|'' | |[[sailfish-software|sailfish]]|0.9.2|'' | ||
|[[salmon-software|salmon]]|1.3.0|'' | |[[salmon-software|salmon]]|1.3.0|'' | ||
Line 302: | Line 324: | ||
|[[seqwish-software|seqwish]]|0.6|'' | |[[seqwish-software|seqwish]]|0.6|'' | ||
|[[shannon-software|shannon]]|0.0.2|'' | |[[shannon-software|shannon]]|0.0.2|'' | ||
+ | |[[shannon_cpp-software|shannon_cpp]]|0.5.0|'' | ||
+ | |[[shapeit-software|shapeit]]|2.904|'' | ||
|[[shasta-software|shasta]]|0.4.0|'' | |[[shasta-software|shasta]]|0.4.0|'' | ||
|[[sickle-software|sickle]]|1.33|'' | |[[sickle-software|sickle]]|1.33|'' | ||
Line 310: | Line 334: | ||
|[[snakemake-software|snakemake]]|6.15.5|'' | |[[snakemake-software|snakemake]]|6.15.5|'' | ||
|[[sniffles-software|sniffles]]|1.0.12b|'' | |[[sniffles-software|sniffles]]|1.0.12b|'' | ||
+ | |[[snippy-software|snippy]]|4.6.0|'' | ||
|snowhite|1.1.4|'' | |snowhite|1.1.4|'' | ||
- | |[[snpeff-software|SnpEff & SnpSift]]|4.1g|'' | + | |[[snpeff-software|snpeff]]|5.1|'' |
|[[snpmeta-software|snpmeta]]|2.0|'' | |[[snpmeta-software|snpmeta]]|2.0|'' | ||
|[[snp-pipeline-software|snp-pipeline]]|1.0.1|'' | |[[snp-pipeline-software|snp-pipeline]]|1.0.1|'' | ||
Line 320: | Line 345: | ||
|[[soapdenovo-trans-software|SOAPdenovo-Trans]]|1.03|'' | |[[soapdenovo-trans-software|SOAPdenovo-Trans]]|1.03|'' | ||
|[[solexaqa-software|SolexaQA++]]|3.1.3|'' | |[[solexaqa-software|SolexaQA++]]|3.1.3|'' | ||
- | |[[spades-software|spades]]|3.15 (3.15.4)|'' | + | |[[spades-software|spades]]|3.15 (3.15.5)|'' |
|[[sourmash-software|sourmash]]|1.0|'' | |[[sourmash-software|sourmash]]|1.0|'' | ||
|[[speedseq-software|speedseq]]|0.1.2|'' | |[[speedseq-software|speedseq]]|0.1.2|'' | ||
Line 327: | Line 352: | ||
|[[squid-software|squid]]|1.9g|'' | |[[squid-software|squid]]|1.9g|'' | ||
|[[sratoolkit-software|sratoolkit]]|2.10.0|'' | |[[sratoolkit-software|sratoolkit]]|2.10.0|'' | ||
+ | |[[sra-tools-software|sra-tools]]|3.0.0|'' | ||
+ | |[[srprism-software|srprism]]|3.1.2|'' | ||
+ | |[[srst2-software|srst2]]|git-73f885f5|'' | ||
|[[sspace-software|sspace]]|3.0|'' | |[[sspace-software|sspace]]|3.0|'' | ||
|[[sspace-longread-software|sspace-longread]]|1.1|'' | |[[sspace-longread-software|sspace-longread]]|1.1|'' | ||
- | |[[stacks-software|stacks]]|1.24|'' | + | |[[stacks-software|stacks]]|2.62|'' |
|staden|2.0.0b8|'' | |staden|2.0.0b8|'' | ||
- | |[[star-software|star]]|2.7.1a|'' | + | |[[star-software|star]]|2.7.10a|'' |
|[[structure-software|structure]]|2.3.4|'' | |[[structure-software|structure]]|2.3.4|'' | ||
|[[stringtie-software|stringtie]]|1.3.4d|'' | |[[stringtie-software|stringtie]]|1.3.4d|'' | ||
+ | |[[stringtie2-software|stringtie2]]|2.0.1|'' | ||
|[[subread-software|subread]]|1.6.2|'' | |[[subread-software|subread]]|1.6.2|'' | ||
|svmlight|V6.02|'' | |svmlight|V6.02|'' | ||
Line 342: | Line 371: | ||
|[[tophat-software|tophat]]|2.1.0|'' | |[[tophat-software|tophat]]|2.1.0|'' | ||
|[[tracer-software|tracer]]|1.6|'' | |[[tracer-software|tracer]]|1.6|'' | ||
+ | |[[transabyss-software|transabyss]]|2.0.1|'' | ||
|[[transdecoder-software|TransDecoder]]|2.0.1|'' | |[[transdecoder-software|TransDecoder]]|2.0.1|'' | ||
|[[transrate-software|Transrate]]|1.0.3|'' | |[[transrate-software|Transrate]]|1.0.3|'' | ||
Line 351: | Line 381: | ||
|[[twinscan-software|twinscan]]|3.5|'' | |[[twinscan-software|twinscan]]|3.5|'' | ||
|[[umi-tools-software|umi-tools]]| 0.2.3 |'' | |[[umi-tools-software|umi-tools]]| 0.2.3 |'' | ||
- | |[[unicycler-software|unicycler]]| 0.4.7 |'' | + | |[[unicycler-software|unicycler]]| 0.4.0 |'' |
|[[usearch-software|usearch]]| v7.0.1090 |'' | |[[usearch-software|usearch]]| v7.0.1090 |'' | ||
|varscan|2.4.2|'' | |varscan|2.4.2|'' | ||
Line 358: | Line 388: | ||
|[[vcftools-software|vcftools]]|0.1.16|'' | |[[vcftools-software|vcftools]]|0.1.16|'' | ||
|[[velvet-software|velvet]]|1.2.10-kmer111|'' | |[[velvet-software|velvet]]|1.2.10-kmer111|'' | ||
- | |[[vep-software|vep]]|92.1|'' | + | |[[velvetoptimiser-software|velvetoptimiser]]|2.2.6|'' |
+ | |[[vep-software|vep]]|109.3|'' | ||
|[[vg-software|vg]]|1.27.0|'' | |[[vg-software|vg]]|1.27.0|'' | ||
|[[viennarna-software|viennarna]]|2.4.14|'' | |[[viennarna-software|viennarna]]|2.4.14|'' |
list-of-software.txt · Last modified: 2024/09/24 07:20 by aorth