Projects

200 project(s) on this page

Project	Selected	Spr	Newest	Outdated	Ignored
abacas∗	1.3.1	3	1.3.12
abricate	1.0.1	1	1.0.1
abyss-explorer	2.1.0	1
adam	0.34.0	2	1.1.1
ale-assemby-likelihood-estimator	0.0.20180904	1
andi	0.13	4	0.143	0.13 0.12 0.10 0.9.6.1
any2fasta	0.4.2	1
apbspdb2pqr∗	1.5	1
aragorn	1.2.38	5	1.2.384	1.2.36
arcs	1.2.1	2	1.2.2
arks	1.0.4	1
art∗	20160605	7		2.0.1 2.0 1.16.2 1.16.1 1.13 1.10.1 0.9.02
artemis-genome-viewer	17.0.1	4	18.2.02	18.1.0 17.0.1.11 17.0.1 16.0.17 16.0.0
ascp∗	3.7.7	1
astral-species-tree	5.7.1	3	5.7.12
bali-phy	3.6.0	3	3.6.12	3.6.0 3.4.1 3.4
bam2fastx	1.3.0	1
bamm-bayesian	2.5.0	1
bandage	0.8.1	5	0.9.02	0.8.13
barrnap	0.9	4	0.92	0.82 0.7
bazam	1.0.1	1
bbtools∗	38.87	2	39.00	1.9
bcalm∗	2.2.2	3	2.2.3	2.2.1	2.2.0.r49.g890ea4a
beast2	2.6.3	5	2.7.02	2.6.7 2.6.6 2.6.4 2.6.3 2.6.0 2.5.1 2.4.7 2.4.4
berokka	0.2.3	1
bfc	r181	3	0.2	g20150417
bifrost	1.0.5	2	1.0.5
biobloomtools	2.3.3	1
biomake	0.1.5	1
bioperl∗	1.007002	6	1.7.83	1.7.73 1.7.2 1.7.1 1.6.924 1.6.923 1.6.901 1.6.9	9999
blat	36	5	37	34 3.2.24 3.2.1 3.1.1 3.0.7 3.0.2 3 2.7.6 2.6.2
bmdca	0.8.12	2	0.8.13
bodr	10	14	1011	93 8
bonsai-taxonomic-analysis	0.3	1
bowtie∗	1.3.0	13	1.3.15	1.3.08 1.2.34 1.2.2 1.1.22 1.1.1 1.0.1 1.0.0 0.12.72
bracken	2.6.0	2		1.0.0
breseq	0.35.4	2		0.33.2
busco	5.0.0	4	5.4.3	5.2.2 5.0.0 4.1.3	3.0.0
bwa-mem2	2.0	3		2.0pre1	r183.d43752d
cannoli	0.12.0	1
canu	1.9	7	2.22	2.1.1 2.02 1.9 1.82 1.7.1 1.6	r10451.g6c4193847
cap3	2015-02-11	3	20091029	2015-02-11
cd-hit	4.8.1	11	4.8.18	4.6.82 4.6.62 4.6.4 4.6.1-2012-08-27 4.5.7
centrifuge	1.0.3	3	1.0.4	1.0.3 1.0.3~beta
circlator	1.5.5	2	1.5.6	1.5.5 1.4.1
circos∗	0.69-9	7	0.69_9 0.69.9 0.69-9	0.69.6 0.69-6 0.69.4 0.69 0.66 0.64 0.552 0.49
clipper4coot∗	2.1.20180802	1
clonalframeml	1.12	3	1.122	1.11
clustal-omega∗	1.2.4	12	1.2.410	1.2.2 1.2.1
clustalw∗	2.1	15	2.112	1.832	2.1+lgpl 2.1+lgpl
Project	Selected	Spr	Newest	Outdated	Ignored
cluster-picker	1.2.5	1
consel	0.20	2		0.1
crumble	0.8.3	1
cutadapt∗	3.3	4	3.3	2.10 2.1 1.14
das-tool	1.1.2	1
dehomopolymerate	0.4.0	1
delly∗	0.8.5	5	1.1.53	1.1.3 0.9.12 0.8.72 0.8.3 0.8.2 0.8.1
dida	1.0.1	3	1.0.40	1.0.4	1.0.4.r5.gbcb26e5 4.3.0.0 4.2.9.0 4.2.8.5 4.2.8.1 4.2.8.0 4.2.7.0 4.2.6.0 4.2.5.0 4.2.4.0 4.2.3.0 4.2.2.0 4.2.1.0 4.2.0.0 4.1.5.0 4.1.4.0 4.1.3.6 4.1.3.0 4.1.2.6 4.1.2.0 4.1.1.0 4.0.5.2 3.9.1.0 3.7.8.8
discovardenovo∗	52488	2	52488
disty	0.1.0	2	0.1.0
dsh-bio	2.0.3	1
dssp∗	3.1.4	9	4.0.5	4.0.42 4.0.3 4.0.0 3.1.44 3.0.11 3.0.02 2.2.13
dwgsim	0.1.12	3	0.1.14	0.1.13 0.1.122 0.1.11	r159.39a1bbb
e-mem	1.0.1	4	28oct2015	1.0.12
easel	0.46	1
edirect∗	13.8	2		13.3.20200128
elph	1.0.1	5	1.0.14
ema	0.6.2	1
emboss∗	6.6.0	15	6.6.011	6.5.7 6.4.0 6.3.1 6.0.1
epa-ng	0.3.8	1
exabayes	1.5	3	1.5.12	1.4.1
exonerate	2.4.0	11	2.4.08	2.2.03
express-rna-seq	1.5.3	4	1.5.32	1.5.1
falco∗	0.2.4	2	0.31.0	0.29.1	0.30.0.r0.gbb811332
faqcs	2.10	1
fasta	36.3.8h	7	36.3.8h.2020.05.04	36.3.8h.2020-02-11 36.3.8h2 36.3.8g3 36.3.8 36.3.5e 21.1.1
fastani	1.32	3	1.332
fastp	0.20.1	9	0.23.26	0.23.1 0.20.13 0.20.03 0.19.6
fastq-pair	1.0	3	1.02
fasttree	2.1.11	7	2.1.113	2.1.104 2.1.9 2.1.82 2.1.7 2.1.4
fastuniq	1.1	1
fermi-lite	0.1	2	0.1		0.1+git20190320.b499514
figtree	1.4.4	6	1.4.44	1.4.32 1.4.2 1.4 1.3.1	1.4.4.14
filtlong	0.2.0	5	0.2.12	0.2.0-1.d1bb46d 0.2.02
finch-rs∗	0.3.0	2	0.4.3
flash-seq∗	1.2.11	5	1.2.114
flowcraft	1.4.1	1
flye∗	2.8.3	2	2.9.1
fraggenescan	1.31	3	1.31	1.30
freebayes	1.3.2	8	1.3.65	1.3.53 1.3.2 1.3.1 1.2.0 1.1.0
fwdpp	0.8.1	1
gappa-phylogenetic-analysis	0.6.1	1
gatk	4.2.0.0	7	4.2.6.14	4.0.6.0 3.8-1 2.4	9999
gblocks	0.91b	4	0.91b3
gemma	0.98.4	5	0.98.52	0.98.4 0.98.32 0.98.1
genome-painter	0.0.8	2	0.0.8
gepard	1.40	1
gfakluge	1.1.2	1
gfalint	1.0.0	1
gfaview	0.0.53	1
Project	Selected	Spr	Newest	Outdated	Ignored
gffcompare∗	0.12.1	4	0.12.6	0.12.2 0.10.15-1.be56ef4
ghostz	1.0.2	2	1.0.2
gmap-gsnap∗	2019-09-12	3		2019.03.15	2021-03-08
groot∗	1.1.2	3	18.8	1.0.0.r57.g05fe640
gzstream	1.5	5	1.54		1.5+git20171107.9a20658
harvest-tools	1.3	2	1.3
hh-suite∗	3.3.0	1
hisat2	2.2.1	9	2.2.17	2.2.0 2.1.0 2.0.5	2.2.1.r8.g49aa20c
hmmer	2.4i	17	3.3.211	3.33 3.2.1 3.1b22 3.1beta2 3.1_beta2 3.1b1 3.03 3 2.4i 2.3.23
hssp∗	3.1.5	3	3.1.5	3.0.10
humann2∗	0.11.1	1
idba	1.1.3	5	1.1.34	1.1.2	9999
indel-seq-gen	2.1.03	2	2.1.03
indelible	1.03	3	1.032
infernal	1.1.3	8	1.1.44	1.1.32 1.1.22 1.1.1 1.1~rc4 1.0.22
iqtree∗	1.6.12	7	2.2.0.4	2.2.0 2.1.2 2.0.7 2.0.6 1.6.122 1.6.9 1.6.1 1.5.3 1.3.11.1
iqtree2∗	2.0.7	2	2.1.3
ispcr	33	1
iva	1.0.9	2	1.0.11	1.0.9 1.0.8
ivar	1.3	3	1.3.12	1.3
jellyfish-k-mer	2.3.0	8	2.3.06	2.2.10 2.2.8 2.2.7 2.2.6 2.2.4 2.1.4 1.1.122 1.1.11 1.1.10 1.1.2
jmol	14.31.34	17	14.32.762	14.32.752 14.32.74 14.32.732 14.32.64 14.32.61 14.32.55 14.32.45 14.32.22 14.32.3 14.31.54 14.31.49 14.31.442 14.31.382 14.31.35 14.31.34 14.31.20 14.31.18 14.31.8 14.31.0 14.30.0 14.29.54 14.29.52 14.27.2 14.6.4+2016.11.05 14.6.02 14.2.9_2014.11.23 12.2.32 12.2.27 12.2.2 12.0.45
jspecies	1.2.1	1
k8	0.2.5	2		0.2.4
kaiju	1.7.4	3		1.6.3 1.6.2
kalign	3.3	4	3.3.22	3.3.1 3.3 2.03+20110620 2.03 2.0.4
kat	2.4.2	2	2.4.2		9999
kent-tools∗	401	1
kma	1.3.6	3	1.4.32	1.3.28 1.3.23 1.3.10 1.2.21
kmc	3.1.1	3	3.2.1	3.1.1 2.3 2.0
kmergenie	1.7048	3	1.7048	1.7044
kounta	0.2.3	1
kr-mutation-distances	2.0.2	1
kraken∗	1.1.1	7	2.1.1	1.1.13 1.12 1.0 0.10.5~beta 0.1	r70.2c5f7ce 32.368a837
kraken2∗	2.1.1	5	2.1.22	2.1.13 2.0.8~beta
kssd	1.1	2	1.1
last	1133	7	14113	1407 1389 1282 1268 1260 1256 11793 1060 963 921 830 712 490 393 299 230 189
lastz	1.04.03	5	1.04.222	1.04.153 1.04.032
legsta	0.5.1	1
libbigwig	0.4.4	7	0.4.73	0.4.62 0.4.43	9999
libccp4∗	6.5.1	8	6.5.16	6.4.62 6.4.5 6.4.0_rc1	r1861
libdivsufsort	2.0.1	11	2.0.110
libgff	2.0.0	6	2.0.05	1.0
libpll	0.3.2	3	1.0.11	0.3.2 0.3.1
libsequence	1.9.8	2	1.9.8
light-assembler	1.0.0	1
lighter	1.1.2	5	1.1.24		9999
links-scaffolder	1.8.7	1
lofreq	2.1.3.1	2	2.1.5
lrsim	1.0	1
Project	Selected	Spr	Newest	Outdated	Ignored
lsd2	1.7.1	1
magic-blast∗	1.3.0	1
maker	2.31.11	2	3.01.03
mapcaller	0.9.9.39	2	0.9.9.39
mash-genome-distance	2.2.2	5	2.33	2.2.2 2.12 2.0 1.1.1
masurca	3.4.1	3	4.0.9	4.0.1
maxbin2	2.2.7	1
mcl	14-137	9	14-1373 14_1372 14.1372	12.135 12-135 11-294 08.312 1.008.09.149
megahit	1.2.9	7	1.2.95	1.1.4
meme-motif-discovery∗	5.1.0	5	5.4.1	5.3.0 5.2.0 4.11.2_p2
metabat	2.15	5	2.153	0.32.4
metaphlan∗	1.7.8	2	4.0.0
mhap	2.1.3	2	2.1.3	2.1.1 1.6
mican	2019.11.27	2	2019.11.27
minced	0.4.2	4	0.4.2	0.3.22
minia∗	3.2.1	4	3.2.6	3.2.1+git20200522.4960a99 3.2.1 1.6906 1.6088 1.6067	3.2.1.r12.g5b131b9
miniasm	0.3	6	0.34	0.2	2018-3-30
minigraph	0.10	2	0.13
minimap	0.2	2	0.2
minimap2∗	2.17	9	2.247	2.23 2.22 2.20 2.172 2.15 2.14	2.17.r46.gc9874e2
mir-prefer	0.24	1
mlst	2.19.0	1
mmdb2∗	2.0.20	6	2.0.222	2.0.203 2.0.1
mmtf-cpp∗	1.0.0	14	1.0.013
mosdepth	0.3.1	4	0.3.33	0.3.2 0.3.12 0.2.3
mothur	1.44.3	6	1.48.03	1.47.0 1.46.1 1.44.3 1.42.1 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
mp-est∗	2.0	1
mpboot	1.1.0	2	1.1.1
mrbayes∗	3.2.7	8	3.2.7a4	3.2.74 3.2.6 3.2.3 3.2.2 3.1.23
mreps	2.6.01	3	2.6.012
mummer	3.23	7	4.0.0rc1 3.233	3.22 3.20	4.0.0.b2.2
muscle-sequence-alignment	3.8.1551	12	5.13	3.8.15515 3.8.315
nanofilt∗	2.7.1	2		2.6.0
nanopolish	0.12.0	5	0.14.02	0.13.3 0.13.2 0.11.3 0.11.1-1.6331dc4 0.11.0 0.10.2 0.9.0 0.5.0 0.4.0	9999 0.14.0.r6.g07cb03d
ncbi-blast+∗	2.2.31 2.2.26	15	2.13.06	2.12.04 2.11.04 2.9.02 2.8.12 2.7.1 2.6.02 2.2.313 2.2.30 2.2.292 2.2.28 2.2.27 2.2.262 2.2.25
newick-utils	1.6	4	1.6	1.5.0	1.6-1.da121155
nextflow	20.07.1	5	22.04.52	22.04.3 21.10.6 21.04.1
nextgenmap	0.5.5	1
ngmaster∗	0.5.6	1
ngmerge	0.3	2	0.3
nonpareil-metagenomic-coverage	3.3.4	1
ntcard	1.2.2	3	1.2.22		9999
ntedit	1.3.4	1
nthits	0.0.1	1
ntjoin	1.0.6	1
nullarbor	2.0.20191013	1
nxtrim	0.4.3	3	0.4.32
oases	0.2.08	1
oma	2.4.2	1
orfm	0.7.1	3	0.7.12

Legend:

• Spread means how many repository families (e.g. all Debian versions as well as Ubuntu and other derivatives make a single family) contain this package.
• newest^#repos - newest known version. The number shows how many repository families have this version.
• devel - newest known devel (or unstable) version. There may be both devel and newest versions for a given package.
• unique - package is only present in a single repository family, there are no other sources to compare it against, so although it's latest version known to repology, is not really reliable.
• outdated - outdated version which requires updating.
• legacy - outdated version when a newer version is present. This is assumed to be legacy version preserved for e.g. compatibility.
• rolling - package is fetched from always latest snapshot or VCS master/trunk, so it is always latest and is not a subject for comparison.
• noscheme - the project does not have official versioning scheme, so versions used in repositories which are basically random.
• incorrect - version is known to be incorrect (e.g. version not officially released yet, or lacking alpha/beta/rc qualifier).
• untrusted - this source is known to likely supply incorrect versions, so is ignored proactively.
• ignored - version is ignored and excluded from comparison for some other reason (e.g. snapshots).
• vulnerable▲ - version is potentially vulnerable as there are related CVEs.