200 project(s) on this page
| Project | Selected | Spr | Newest | Outdated | Ignored |
|---|---|---|---|---|---|
| abacas | 1.3.1 | 2 | 1.3.1 | ||
| abricate | 0.9.9 | 1 | |||
| abyss-explorer | 1.3.4 | 1 | |||
| adam | 0.30.0 | 1 | |||
| ale-assemby-likelihood-estimator | 0.0.20180904 | 1 | |||
| any2fasta | 0.4.2 | 1 | |||
| apbspdb2pqr∗ | 1.5 | 1 | |||
| aragorn | 1.2.38 | 4 | 1.2.383 | 1.2.36 | |
| arcs | 1.1.1 | 1 | |||
| arks | 1.0.4 | 1 | |||
| art | 20160605 | 3 | 2.0 0.9.01 | ||
| ascp∗ | 3.7.7 | 1 | |||
| astral-species-tree | 5.7.1 | 1 | |||
| bali-phy | 3.4.1 | 3 | 3.4.12 | 3.4 3.3 3.1.2 | |
| bam2fastx | 1.3.0 | 1 | |||
| bamm-bayesian | 2.5.0 | 1 | |||
| bandage | 0.8.1 | 3 | 0.8.12 | ||
| barrnap | 0.9 | 2 | 0.9 | 0.8 0.7 | |
| bazam | 1.0.1 | 1 | |||
| bbtools∗ | 38.70 | 2 | 1.9 | ||
| beast2 | 2.6.1 | 3 | 2.6.0 2.5.1 2.4.7 2.4.4 | ||
| berokka | 0.2 | 1 | |||
| biobloomtools | 2.3.2 | 1 | |||
| biomake | 0.1.5 | 1 | |||
| bioperl∗ | 1.007002 | 6 | 1.007002 | 1.7.7 1.7.62 1.7.2 1.7.1 1.6.9242 1.6.923 1.6.901 1.6.9 | 9999 |
| blast-legacy∗ | 2.2.26 | 1 | |||
| blat | 36 | 5 | 35 34 3.2.22 3.2.1 3.1.1 3.0.7 3.0.2 3 2.7.6 2.6.2 | ||
| bonsai | 0.3 | 3 | 1.3.92 | ||
| bowtie | 1.2.3 | 11 | 1.2.36 | 1.2.2 1.1.23 1.1.1 1.0.1 1.0.02 0.12.72 | |
| bracken | 2.2 | 1 | |||
| breseq | 0.33.0 | 1 | |||
| busco | 4.0.4 | 2 | 3.0.0 | ||
| bwa-mem2 | 2.0pre1 | 3 | 2.0pre1 | r83.a06c1af | |
| cannoli | 0.8.0 | 1 | |||
| canu | 1.9 | 5 | 1.93 | 1.82 1.7.1 1.7 1.6 | |
| cd-hit | 4.8.1 | 9 | 4.8.14 | 4.6.82 4.6.62 4.6.5 4.6.42 4.6.1 4.5.7 | |
| circos∗ | 0.69-9 | 5 | 0.69.9 | 0.69.6 0.69_4 0.69.4 0.69 0.66 0.64 0.552 0.49 | |
| clonalframeml | 1.12 | 3 | 1.12 | 1.11 | |
| clustal-omega∗ | 1.2.4 | 9 | 1.2.48 | 1.2.1 | |
| clustalw∗ | 2.1 | 13 | 2.111 | 1.832 | |
| cluster-picker | 1.2.5 | 1 | |||
| consel | 0.20 | 2 | 0.1 | ||
| crumble | 0.8.1 | 1 | |||
| cutadapt∗ | 2.6 | 3 | 2.1 1.14 | ||
| das-tool | 1.1.1 | 1 | |||
| dehomopolymerate | 0.3 | 1 | |||
| dida | 1.0.1 | 1 | |||
| disty | 0.1.0 | 2 | 0.1.0 | ||
| dsh-bio | 1.3.1 | 1 | |||
| dwgsim | 0.1.12 | 3 | 0.1.122 | 0.1.11 | r159.39a1bbb |
| Project | Selected | Spr | Newest | Outdated | Ignored |
| easel∗ | 0.43 | 1 | |||
| edirect∗ | 12.4 | 2 | 12.1.20190819 | ||
| elph | 1.0.1 | 5 | 1.0.14 | ||
| ema | 0.6.2 | 1 | |||
| emboss∗ | 6.6.0 | 14 | 6.6.010 | 6.5.7 6.4.0 6.3.1 6.0.1 | |
| epa-ng | 0.3.6 | 1 | |||
| exabayes | 1.5 | 2 | 1.4.1 | ||
| exonerate | 2.4.0 | 10 | 2.4.07 | 2.2.03 | |
| express-rna-seq | 1.5.3 | 3 | 1.5.12 | ||
| fastani | 1.1 | 1 | |||
| fastp | 0.20.0 | 6 | 0.20.04 | 0.19.6 0.14.1 | |
| fastq-pair | 1.0 | 2 | 1.0 | ||
| fasttree | 2.1.11 | 6 | 2.1.112 | 2.1.103 2.1.9 2.1.82 2.1.7 2.1.4 | |
| fastuniq | 1.1 | 1 | |||
| fermi-lite | 0.1 | 2 | 0.1 | ||
| figtree | 1.4.4 | 6 | 1.4.44 | 1.4.3 1.4.22 1.4 1.3.1 | |
| filtlong | 0.2.0 | 3 | 0.2.0 | 0.2.0-1.d1bb46d | |
| finch-rs | 0.3.0 | 2 | 0.3.0 | ||
| flash-seq | 1.2.11 | 1 | |||
| flowcraft | 1.4.1 | 1 | |||
| flye | 2.6 | 1 | |||
| fraggenescan | 1.31 | 2 | 1.30 | ||
| freebayes | 1.3.2 | 6 | 1.3.2 | 1.3.12 1.2.03 1.1.0 1.0.2-1.3ce827d | 1.0.1.r0.gefe685d 2017-08-23 |
| fwdpp | 0.6.1 | 1 | |||
| gatk | 4.1.4.1 | 5 | 4.1.4.1 | 4.0.7.0 4.0.6.0 3.8-1 2.4 | 9999 |
| gblocks | 0.91b | 3 | 0.91b2 | ||
| gemma | 0.98.1 | 4 | 0.98.12 | 0.98 0.97 | |
| gepard | 1.40 | 1 | |||
| gfakluge | 1.1.0 | 1 | |||
| gfalint | 1.0.0 | 1 | |||
| gfaview | 0.0.53 | 1 | |||
| ghostz | 1.0.2 | 2 | 1.0.2 | ||
| gmap-gsnap∗ | 2019-09-12 | 2 | 2019.03.15 | ||
| gzstream | 1.5 | 5 | 1.54 | ||
| harvest-tools | 1.3 | 2 | 1.3 | ||
| hisat2 | 2.1.0 | 7 | 2.1.03 | 2.0.52 | 2.1.0.232 |
| humann2 | 0.11.1 | 1 | |||
| idba | 1.1.3 | 3 | 1.1.32 | 1.1.2 | |
| indel-seq-gen | 2.1.03 | 2 | 2.1.03 | ||
| indelible | 1.03 | 3 | 1.032 | ||
| iqtree | 1.6.12 | 4 | 1.6.123 | 1.6.11 1.6.9 1.6.5 1.6.1 1.5.3 1.3.11.1 | |
| ispcr | 33 | 1 | |||
| iva | 1.0.9 | 3 | 1.0.9 | 1.0.8 0.10.1 | |
| jspecies | 1.2.1 | 1 | |||
| k8 | 0.2.4 | 1 | |||
| kaiju | 1.7.0 | 2 | 1.6.3 | ||
| kalign | 3.1.1 | 4 | 2.032 2.0.4 | ||
| kat | 2.4.1 | 1 | |||
| kent-tools∗ | 367 | 1 | |||
| kma | 1.2.21 | 3 | 1.2.212 | 1.2.10a | |
| Project | Selected | Spr | Newest | Outdated | Ignored |
| kmc | 3.1.1 | 3 | 2.3 2.0 | ||
| kmergenie | 1.7048 | 1 | |||
| kounta | 0.2.0 | 1 | |||
| kr-mutation-distances | 2.0.2 | 1 | |||
| kraken∗ | 1.1.1 | 5 | 1.1.12 | 1.12 0.10.5beta 0.1 | r70.2c5f7ce 32.368a837 |
| kraken2 | 2.0.8 | 3 | 2.0.8beta 2.0.8-beta | ||
| kssd | 1.0 | 2 | 1.0 | ||
| last | 1047 | 5 | 10473 | 983 963 938 921 830 712 490 393 299 230 189 | |
| lastz | 1.04.00 | 2 | 1.04.00 | ||
| legsta | 0.3.7 | 1 | |||
| libbigwig | 0.4.4 | 5 | 0.4.44 | 0.4.2 | |
| libdivsufsort | 2.0.1 | 9 | 2.0.18 | 9999 | |
| libmuscle∗ | 3.7 | 3 | 3.72 | ||
| libsequence | 1.9.7 | 1 | |||
| light-assembler | 1.0.0 | 1 | |||
| lighter | 1.1.1 | 1 | |||
| links-scaffolder | 1.8.7 | 1 | |||
| lofreq | 2.1.3.1 | 1 | |||
| lrsim | 1.0 | 1 | |||
| lsd2 | 1.3 | 1 | |||
| magic-blast | 1.3.0 | 1 | |||
| maker | 2.31.10 | 1 | |||
| mapcaller | 0.9.9.37 | 2 | 0.9.9.34 | ||
| mash-genome-distance | 2.2.2 | 4 | 2.2.22 | 2.2 2.12 2.0 1.1.1 | |
| masurca | 3.3.5 | 1 | |||
| maxbin2 | 2.2.6 | 1 | |||
| mcl | 14-137 | 8 | 14.1372 14_137 14-137 | 14 12.135 12 11 09_308 08.312 1.008.09.149 | |
| meme-motif-discovery∗ | 5.1.0 | 4 | 5.1.02 | 4.11.2_p2 | |
| metabat | 2.13 | 3 | 2.12.1 0.32.4 | ||
| metaphlan | 1.7.8 | 1 | |||
| mhap | 2.1.3 | 2 | 2.1.3 | 2.1.1 1.6 | |
| minced | 0.4.0 | 2 | 0.3.2 | ||
| minia∗ | 3.2.1 | 4 | 3.2.1 | 3.2.1git20191130.5 1.6906 1.6088 1.6067 | 3.2.1.r12.g5b131b9 |
| miniasm | 0.3 | 2 | 0.3 | 0.2 | |
| minigraph | 0.2 | 1 | |||
| minimap | 0.2 | 2 | 0.2 | ||
| minimap2 | 2.17 | 6 | 2.174 | 2.15 2.10 | |
| mir-prefer | 0.24 | 1 | |||
| mlst | 2.18.0 | 1 | |||
| mmtf-cpp∗ | 1.0.0 | 9 | 1.0.08 | ||
| mp-est | 2.0 | 1 | |||
| mpboot | 1.1.0 | 1 | |||
| mreps | 2.6.01 | 2 | 2.6.01 | ||
| mummer∗ | 3.23 | 6 | 3.233 | 3.22 3.20 | 4.0.0.b2.2 |
| muscle-sequence-alignment | 3.8.1551 | 10 | 3.8.15515 | 3.8.315 | |
| nanofilt | 2.5.0 | 1 | |||
| newick-utils | 1.6 | 4 | 1.6 | 1.5.0 | 1.6-1.da121155 |
| nextgenmap | 0.5.5 | 1 | |||
| ngmaster | 0.5.5 | 1 | |||
| ngmerge | 0.2 | 1 | |||
| Project | Selected | Spr | Newest | Outdated | Ignored |
| nonpareil-metagenomic-coverage | 3.3.1 | 1 | |||
| ntcard | 1.2.1 | 1 | |||
| ntedit | 1.3.1 | 1 | |||
| nthits | 0.0.1 | 1 | |||
| ntjoin | 1.0.1 | 1 | |||
| nullarbor | 2.0.20191013 | 1 | |||
| nxrepair | 0.13 | 1 | |||
| nxtrim | 0.4.3 | 1 | |||
| oases | 0.2.08 | 1 | |||
| oma | 2.4.1 | 1 | |||
| orfm | 0.7.1 | 2 | 0.7.1 | ||
| pandaseq | 2.11 | 2 | 2.11 | ||
| panito | 0.0.1 | 1 | |||
| parasail | 2.4.1 | 1 | |||
| pathvisio | 3.3.0 | 2 | 3.3.0 | ||
| peat | 1.2.5 | 2 | 1.0.2 | ||
| phlawd | 3.4b | 1 | |||
| phylip | 3.697 | 9 | 3.6973 | 3.6963 3.6952 3.694 | |
| phylobayes∗ | 4.1e | 2 | 4.1b | ||
| phyx | 1.01 | 2 | 1.01 | 0.999 | |
| pilon | 1.23 | 2 | 1.23 | 1.22 | |
| pirate | 1.0.2 | 1 | |||
| porechop | 0.2.4 | 3 | 0.2.4 | 0.2.3-1.289d5dc | |
| portcullis | 1.1.0 | 1 | |||
| prank∗ | 170427 | 5 | 170427 | 140603 100802 0.0.170427 0.0.150803 0.0.140110 | |
| prokka | 1.14.6 | 2 | 1.14.5 1.13.7 1.13.4 | ||
| pullseq | 1.0.2 | 1 | |||
| quast | 5.0.2 | 1 | |||
| quickmerge | 0.3 | 1 | |||
| quicktree | 2.5 | 1 | |||
| r8s | 1.81 | 2 | 1.80 | ||
| rapidnj | 2.3.2 | 1 | |||
| rasusa∗ | 0.1.0 | 1 | |||
| raven-assembler | 0.0.0 | 1 | |||
| raxml∗ | 8.2.12 | 8 | 8.2.125 | 8.2.11 8.2.9 8.2.4 8.1.1 7.7.6 7.2.8 7.2.6 | |
| rcorrector | 1.0.3 | 1 | |||
| realphy | 1.12 | 1 | |||
| repaq | 0.2.0 | 1 | |||
| rmblast | 2.2.28 | 3 | 2.2.28 | 1.2 | |
| rtg-tools | 3.9 | 2 | 3.8.4 | ||
| salmid | 0.1.23 | 2 | 0.1.23 | ||
| samblaster | 0.1.24 | 3 | 0.1.242 | ||
| samclip | 0.2 | 1 | |||
| sdsl-lite | 2.1.1 | 5 | 2.1.13 | 2.0.3 v2.1.1.r132.gddb0fbbc | |
| sepp | 4.3.10 | 1 | |||
| seq-gen | 1.3.4 | 3 | 1.3.4 | 1.3.32 1.3.2 | |
| seqkit | 0.12.0 | 2 | 0.11.0 | ||
| sga | 0.10.15 | 3 | 0.10.152 | ||
| shovill | 1.0.4 | 1 | |||
| sibelia | 3.0.7 | 1 |
Legend: