Projects

190 project(s) on this page

Project Selected Spr Newest Outdated Ignored
abacas 1.3.1 2 1.3.1
adam 0.32.0 2 1.1.1
andi 0.13 3 0.132 0.12 0.10 0.9.6.1
aragorn 1.2.38 4 1.2.383 1.2.36
art 20160605 3 2.0 0.9.01
artemis-genome-viewer 17.0.1 4 18.1.0 17.0.1.11 17.0.1 16.0.17 16.0.0
bali-phy 3.5.0 3 3.5.0.2 3.5.0.1 3.4.1 3.4 3.1.2
bandage 0.8.1 3 0.8.12
barrnap 0.9 2 0.9 0.8 0.7
bbtools 38.86 2 1.9
bcalm 2.2.2 3 2.2.2 2.2.1 2.2.0.r49.g890ea4a
beast2 2.6.2 3 2.6.0 2.5.1 2.4.7 2.4.4
bfc r181 2 0.2
bifrost 1.0.4 2 1.0.4
bioperl 1.007002 6 1.7.72 1.7.2 1.7.1 1.6.9242 1.6.923 1.6.901 1.6.9 9999 1.007002
blast 2.2.31 3 2.10.1 2.10.0 1.0
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
bodr 10 14 1011 93 8
bonsai 0.3 3 1.3.92
bowtie 1.2.3 11 1.3.02 1.2.36 1.2.2 1.1.23 1.1.1 1.0.1 1.0.02 0.12.72
busco 4.1.1 3 4.1.2 3.0.0
bwa-mem2 2.0 3 2.0pre1 r83.a06c1af
canu 1.9 5 2.02 1.92 1.82 1.7 1.6
cap3 2015-02-11 2 20091029
cd-hit 4.8.1 10 4.8.15 4.6.82 4.6.62 4.6.5 4.6.42 4.6.1 4.5.7
centrifuge 1.0.3 3 1.0.4 1.0.3 1.0.3beta
circlator 1.5.5 2 1.5.6 1.5.5 1.4.1
circos 0.69-9 6 0.69.9 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 1.122 1.11
clustal-omega 1.2.4 9 1.2.48 1.2.1
clustalw 2.1 13 2.111 1.832
consel 0.20 2 0.1
cutadapt 2.10 3 2.1 1.14
delly 0.8.3 4 0.8.3 0.8.22 0.8.1 0.7.9
dida 1.0.1 2 1.0.4 1.0.4.r5.gbcb26e5
disty 0.1.0 2 0.1.0
dwgsim 0.1.12 3 0.1.122 0.1.11 r159.39a1bbb
e-mem 1.0.1 3 28oct2015 1.0.1
edirect 12.4 2 13.3.20200128
elph 1.0.1 5 1.0.14
emboss 6.6.0 14 6.6.010 6.5.7 6.4.0 6.3.1 6.0.1
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 1.5.3 1.5.1
fasta 36.3.8h 6 36.3.8h.20202 36.3.8h 36.3.8g2 36.3.8 36.3.5e 21.1.1
fastp 0.20.1 6 0.20.13 0.20.02 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
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
Project Selected Spr Newest Outdated Ignored
filtlong 0.2.0 4 0.2.02 0.2.0-1.d1bb46d
finch-rs 0.3.0 2 0.3.0
flash-seq 1.2.11 2 1.2.11
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
gappa 0.6.0 4 1.3.53 1.3.3 1.3.2 1.3.1
gatk 4.1.8.1 5 4.1.8.0 4.1.7.0 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
genome-painter 0.0.8 2 0.0.8
ghostz 1.0.2 2 1.0.2
gmap-gsnap 2019-09-12 2 2019.03.15
groot 1.1.2 2 18.8
gzstream 1.5 5 1.54
harvest-tools 1.3 2 1.3
hisat2 2.2.0 7 2.2.1 2.2.02 2.1.0.232 2.1.02 2.0.52
hmmer 2.4i 16 3.3.14 3.37 3.2.12 3.1b22 3.1beta2 3.1_beta2 3.1b1 3.03 3 2.4i 2.3.23
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
infernal 1.1.3 7 1.1.35 1.1.2 1.1.1 1.1rc4 1.0.22
iqtree 1.6.12 5 2.0.6 2.0.4 1.6.122 1.6.11 1.6.9 1.6.5 1.6.1 1.5.3 1.3.11.1
iva 1.0.9 3 1.0.9 1.0.8 0.10.1
ivar 1.2.2 2 1.2.2
jellyfish-k-mer 2.3.0 6 2.3.02 2.2.103 2.2.8 2.2.6 2.2.42 2.1.4 1.1.12 1.1.11 1.1.10 1.1.2
kaiju 1.7.3 2 1.6.3
kalign 3.2.3 4 3.2.3 2.032 2.0.4
kma 1.3.2 3 1.3.22 1.2.21 1.2.10a
kmc 3.1.1 3 2.3 2.0
kraken 1.1.1 5 1.1.12 1.12 0.10.5beta 0.1 r70.2c5f7ce 32.368a837
kraken2 2.0.9 3 2.0.8beta 2.0.8-beta
kssd 1.1 2 1.0
last 1061 5 1080 10663 1060 1045 983 963 938 921 830 712 490 393 299 230 189
lastz 1.04.03 3 1.04.032
libbigwig 0.4.4 5 0.4.44 0.4.2
libdivsufsort 2.0.1 9 2.0.18 9999
libgff 2.0.0 3 2.0.0 1.02
libpll 0.3.2 3 1.0.11 0.3.2 0.3.1
lighter 1.1.2 2 1.1.2
mapcaller 0.9.9.39 2 0.9.9.39
mash-genome-distance 2.2.2 4 2.2.22 2.2 2.12 2.0 1.1.1
mcl 14-137 8 14.1372 14_137 14-137 14 12.135 12 11 09_308 08.312 1.008.09.149
megahit 1.2.9 2 1.2.9
meme-motif-discovery 5.1.0 4 5.1.1 5.1.0 4.11.2_p2
metabat 2.15 4 2.15 2.12.1 0.32.4
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 3.2.1git20200522.4960 1.6906 1.6088 1.6067 3.2.1.r12.g5b131b9
miniasm 0.3 3 0.32 0.2
minimap 0.2 2 0.2
Project Selected Spr Newest Outdated Ignored
minimap2 2.17 6 2.175 2.15
mmtf-cpp 1.0.0 11 1.0.010
mosdepth 0.2.9 3 0.2.9 0.2.6 0.2.3
mothur 1.42.3 5 1.44.22 1.43.0 1.42.1 1.40.3 1.39.5 1.38.1.1 1.36.1 1.33.3 1.31.2 1.27.0 1.22.2 1.41.21
mrbayes 3.2.7 7 3.2.7a2 3.2.72 3.2.6 3.2.3 3.2.2 3.1.23
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 11 3.8.15516 3.8.315
nanofilt 2.7.1 2 2.6.0
nanopolish 0.12.0 3 0.13.2 0.11.3 0.11.1-1.6331dc4 0.11.1 0.11.0 0.9.0 0.5.0 0.4.0
newick-utils 1.6 4 1.6 1.5.0 1.6-1.da121155
nextflow 19.04.1 3 20.07.1 20.04.1
orfm 0.7.1 2 0.7.1
paml 4.9i 8 4.9j3 4.9i 4.9h2 4.9g 4.9e 4.8 4.7 4.5 4.4e 4.4c
pandaseq 2.11 2 2.11
parasail 2.4.2 2 2.4.2
parsnp 1.5.2 2 1.2.1 1.2
pathvisio 3.3.0 2 3.3.0
peat 1.2.5 2 1.0.2
phylip 3.697 9 3.6973 3.6963 3.6952 3.694
phylobayes 4.1e 2 4.1b
phyml 3.3.20200621 8 3.3.202006214 3.3.201909093 3.3.20190321 3.3.20180621 3.3.20180214 3.3.20170530 3.2.0 2.4.5 r121.ab59039 201204122 20110919
phyx 1.01 2 1.01 0.999
pilon 1.23 2 1.23
porechop 0.2.4 3 0.2.4 0.2.3-1.289d5dc
pplacer 1.1.alpha17 3 1.1alpha19 1.1.alpha19
prank 170427 5 170427 140603 100802 0.0.170427 0.0.150803 0.0.140110
prokka 1.14.6 2 1.14.6 1.14.5 1.13.7
pymol 2.3.0 15 2.4.03 2.3.3 2.3.09 2.2.02 2.1.02 1.9.0.0.svn4184 1.8.6.02 1.8.6 1.8.4.02 1.7.7.1.svn4131 1.7.4.0 1.7.2.1 1.7.0.0 1.4.12 r4707.7b4e2af9 r4631.844bf876
python:matplotlib 2.2.3 34 3.3.1 3.3.012 3.2.27 3.2.19 3.1.32 3.1.24 3.1.1 3.0.33 3.0.22 2.2.55 2.2.48 2.2.37 2.2.24 2.1.2 2.1.1 2.1.0 2.0.2 2.0.03 1.5.3 1.5.14 1.5.0 1.4.3 1.4.2 1.3.12 1.2.1 1.2.02 1.1.1rc1.git20120423 0.99.1.22 r26679.b9b02f189
quast 5.0.2 2 5.0.2
quicktree 2.5 2 2.5
quip 1.1.8 2 7.16.0
r8s 1.81 2 1.80
racon 1.4.13 2 1.4.13 1.4.10 1.3.2
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
repeatmasker 4.0.7 4 4.1.0 4.0.5 4.0.1
rmblast 2.2.28 3 2.2.28 1.2
roary 3.13.0 3 3.13.0 3.12.02 3.8.0 3.6.0
rtg-tools 3.11 2 3.8.4
ruby:rails 1.5.1 20 6.0.3.27 6.0.3.12 6.0.2.2 6.0.2 5.2.4.35 5.2.4.2 5.2.4.1 5.2.34 5.2.2.12 5.2.2 5.2.12 5.1.73 5.1.6 5.1.5 5.1.42 5.0.7.2 5.0.2 4.2.11.3 4.2.11.12 4.2.10 4.2.7.1 4.2.62 4.2.4 4.1.8 4.1.1 4.0.2 3.2.19 3.2.18 3.2.16 3.2.13 3.0.5 2.3.14.1 2.3.14 2.3.5 1.1.6
salmid 0.1.23 2 0.1.23
salmon 1.3.0 4 1.3.0 0.13.12 0.12.0 0.7.2
sambamba 0.7.1 4 0.7.13 0.6.7
samblaster 0.1.26 4 0.1.262 0.1.242
samclip 0.4.0 2 0.4.0
sdsl-lite 2.1.1 5 2.1.13 2.0.3 v2.1.1.r132.gddb0fbbc
seq-gen 1.3.4 3 1.3.4 1.3.32 1.3.2
seqan 3.0.1 2.4.0 9 3.0.1 2.4.07 2.3.2 2.3.12 2.2.0 1.4.25 1.4.1 1.3.12 1.3 9999 3.0.0.r465.g4cdd84b2 r.fcad60a
seqkit 0.13.2 3 0.12.1 0.11.0
Project Selected Spr Newest Outdated Ignored
sga 0.10.15 3 0.10.152
shovill 1.1.0 2 1.1.0
sibelia 3.0.7 2 3.0.7
ska-split-kmer 1.0 2 1.0
skesa 2.4.0 2 2.4.0 2.3.0
smalt 0.7.6 2 0.7.6
snp-dists 0.7.0 2 0.7.0
snp-sites 2.5.1 3 2.5.12 2.4.1 2.3.3 2.3.2 2.1.3 1.5.0
snpeff 4.3t 4 4.3t2 4_3t
sortmerna 2.1 4 4.2.0 3.0.3 2.1b 2.1 2.0
squeakr 0.7 2 0.7
stacks 2.41 6 2.532 2.412 2.4 2.22 2.1 2.0Beta9 2.0Beta8c 1.44 1.35
staden-io-lib 1.14.13 4 1.14.132 1.14.11 1.14.9 1.14.8 1.14.6 1.13.7 1.13.5 1.12.42
stringtie 2.1.4 7 2.1.3 2.1.2 2.1.12 2.0.4 1.3.62 1.2.1
subread 2.0.1 4 2.0.12 2.0.0 1.6.5 1.6.3 1.6.2 1.6.02 1.5.1 1.5.0
sumaclust 1.0.31 3 1.0.36 1.0.35 1.0.34 1.0.31 1.0.20 1.0.10
swipe 2.1.0 2 2.1.0
tbl2asn 25.8 2 24.3
transabyss 2.0.1 2 1.5.3
transdecoder 5.5.0 3 5.4.0 5.0.1 3.0.1 2.0.1
trf-tandem-repeats-finder 4.09 4 4.09.1 4.07b 4.04
trimadap 0.1.11 2 0.1.3
trimal 1.4.1 3 1.4.12
trimmomatic 0.39 6 0.393 0.383 0.36 0.35 0.32
trinityrnaseq 2.9.1 2 2.10.0 2.6.6 2.5.1 2.2.0
trnascan-se 2.0.4 5 2.0.52 2.0.32 2.0.0 1.31 1.3.1
unicycler 0.4.7 2 0.4.8 0.4.7
varscan 2.4.3 3 2.4.3 2.4.2 2.3.9 2.3.7
vcflib 1.0.1 4 1.0.1 1.0.0.r1.130 v1.0.0.rc1.r127.gac59d4f
velvet 1.2.10 7 1.2.106 1.1.07 1.0.18
velvetoptimiser 2.2.6 2 2.2.6 2.2.5
verticalize 1.0.1 3 1.0.1 r9.57f8c91
viennarna 2.4.14 5 2.4.144
virulign 1.0.2 2 1.0.2
vmatch 2.3.1 2 2.3.1
vt 0.5772 4 0.577212 0.5772
wiggletools 1.2.3 2 1.2.4
wise2 2.4.1 9 2.4.15 2.4.0_alpha 2.2.04
wish 1.0 2 1.3.r7905f84
wtdbg2 2.5 2 2.5

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