Projects

172 project(s) on this page

Project	Selected	Spr	Newest	Outdated	Ignored
abacas	1.3.1	2	1.3.1
andi	0.12	3	0.13	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	3.4.1	3	3.4.12	3.4 3.3 3.1.2
bandage	0.8.1	3	0.8.12
barrnap	0.9	2	0.9	0.8 0.7
bbtools∗	38.70	2		1.9
bcalm∗	2.2.0	3	2.2.1		2.2.0.r49.g890ea4a
beast2	2.6.1	3		2.6.0 2.5.1 2.4.7 2.4.4
bfc	r181	2	0.2
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∗	2.2.31	3	2.10.02	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
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
busco	4.0.4	2			3.0.0
bwa-mem2	2.0pre1	3	2.0pre1		r83.a06c1af
canu	1.9	5	1.93	1.82 1.7.1 1.7 1.6
cap3	2015-02-11	2	20091029
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
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	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
consel	0.20	2		0.1
cutadapt∗	2.6	3		2.1 1.14
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		12.1.20190819
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		1.5.12
fasta	36.3.8g	6	36.3.8h2	36.3.8g2 36.3.8 36.3.5e 21.1.1
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
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
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
gappa∗	0.4.0	3	1.3.52	1.3.3 1.3.2 1.3.1
Project	Selected	Spr	Newest	Outdated	Ignored
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
genome-painter	0.0.6	2	0.0.8
ghostz	1.0.2	2	1.0.2
gmap-gsnap∗	2019-09-12	2		2019.03.15
groot∗	0.8.5	2	18.8
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
hmmer	2.4i	15	3.38	3.2.15 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∗	1.1.2	7	1.1.33	1.1.24 1.1.1 1.1rc4 1.0.22
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
iva	1.0.9	3	1.0.9	1.0.8 0.10.1
jellyfish-k-mer	2.2.10	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	1.7.0	2		1.6.3
kalign	3.1.1	4		2.032 2.0.4
kma	1.2.21	3	1.2.212	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	2.0.8	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
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
libpll	0.3.2	3	1.0.11	0.3.2 0.3.1
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
mcl	14-137	8	14.1372 14_137 14-137	14 12.135 12 11 09_308 08.312 1.008.09.149
megahit	1.1.4	2	1.2.9	1.1.4
meme-motif-discovery∗	5.1.0	4	5.1.02	4.11.2_p2
metabat	2.13	3		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	3.2.1git20191130.5 1.6906 1.6088 1.6067	3.2.1.r12.g5b131b9
miniasm	0.3	2	0.3	0.2
minimap	0.2	2	0.2
minimap2	2.17	6	2.174	2.15 2.10
mmtf-cpp∗	1.0.0	9	1.0.08
mosdepth	0.2.3	3	0.2.6	0.2.3
mothur	1.42.3	5	1.43.02	1.42.1 1.40.5 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	3.2.7a	3.2.7 3.2.6 3.2.3 3.2.2 3.1.24
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
Project	Selected	Spr	Newest	Outdated	Ignored
nanopolish	0.11.1	3	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	20.01.0	19.04.1
orfm	0.7.1	2	0.7.1
paml∗	4.9i	8	4.9j3	4.9i2 4.9h2 4.9g 4.9e 4.8 4.7 4.5 4.4e 4.4c
pandaseq	2.11	2	2.11
parsnp∗	1.2	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∗	3.3.20190321	8	3.3.201909095	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	1.22
porechop	0.2.4	3	0.2.4	0.2.3-1.289d5dc
pplacer	1.1.alpha17	2	1.1.alpha19
prank∗	170427	5	170427	140603 100802 0.0.170427 0.0.150803 0.0.140110
prokka	1.14.6	2		1.14.5 1.13.7 1.13.4
pymol∗	2.3.0	16	2.3.3	2.3.012 2.2.03 2.1.03 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	r4631.844bf876 r4593.4948dd0f
python:matplotlib∗	2.2.3	33	3.1.310	3.1.25 3.1.13 3.0.33 3.0.23 2.2.52 2.2.47 2.2.38 2.2.24 2.1.2 2.1.1 2.1.0 2.0.2 2.0.03 1.5.32 1.5.14 1.5.0 1.4.3 1.4.2 1.3.12 1.2.1 1.2.03 1.1.1rc1.git20120423 1.0.0 0.99.1.23	9999 r26679.b9b02f189 3.2.0rc3
quip	1.1.8	2	7.4.0
r8s	1.81	2		1.80
racon	1.4.3	2	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
rtg-tools	3.9	2		3.8.4
ruby:rails∗	1.5.1	20	6.0.2.16	6.0.2 6.0.0 5.2.4.13 5.2.36 5.2.2.12 5.2.22 5.2.13 5.2.0 5.1.73 5.1.6.2 5.1.62 5.1.52 5.1.43 5.0.7.22 5.0.7 5.0.2 4.2.11.14 4.2.102 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 3.2.6 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	0.9.1	4	0.13.12	0.12.0 0.7.2
sambamba	0.6.8	4	0.7.1	0.7.0 0.6.8 0.6.7
samblaster	0.1.24	3	0.1.242
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	3.0.0 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	0.12.0	2		0.11.0
sga	0.10.15	3	0.10.152
ska-split-kmer	1.0	2	1.0
skesa	2.3.0	2	2.3.0
smalt	0.7.6	2	0.7.6
snp-dists	0.6.3	2	0.6.3
snp-sites	2.5.1	3	2.5.12	2.4.1 2.4.0 2.3.3 2.3.2 2.1.3 1.5.0
snpeff	4.3t	4	4.3t2 4_3t
sortmerna	2.1	4	3.0.3	2.1b 2.1 2.0
stacks	2.41	6	2.412	2.4 2.22 2.1 2.0Beta9 2.0Beta8c 1.44 1.35
staden-io-lib∗	1.14.11	4	1.14.12	1.14.112 1.14.9 1.14.8 1.14.6 1.13.7 1.13.5 1.12.42
stringtie	1.3.6	7	2.1.12	2.1.0 2.0.4 1.3.62 1.3.4.d 1.2.1
subread	2.0.0	3	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	1.0.342	1.0.31 1.0.20 1.0.10
swipe	2.1.0	2	2.1.0
Project	Selected	Spr	Newest	Outdated	Ignored
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	3		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	2.8.3	2		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		1.0.0.r1.130 0.0.0-1.5ac0913	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	4	2.4.143
virulign	1.0.2	2	1.0.2
vsearch	2.14.1	6	2.14.2	2.14.12 2.13.6 2.13.42 2.10.4 2.9.1 2.8.0 2.7.1 2.3.4 1.1.3
vt	0.5772	2	0.5772
wiggletools	1.2.3	2	1.2.3
wise2	2.4.1	10	2.4.15	2.4.0_alpha 2.2.05
wish	1.0	2			1.3.r7905f84

Legend:

• Spread means how many repository families (e.g. all Debian versions are 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).