Projects

136 project(s) on this page

Project	In Homebrew tap Brewsci/bio	Spread	Newest	Outdated	Ignored
abacas	1.3.1	2	1.3.1
andi	0.12	3	0.122	0.11 0.10 0.9.6.1
aragorn	1.2.38	3	1.2.382	1.2.36
art	20160605	3		2.0 0.9.01
artemis	17.0.1	7	17.0.12	16.0.17 16.0.0 1.4.03	17.0.1.11
bali-phy	3.4.1	3	3.4.1	3.4 3.3 3.1.2 3.0.3
bandage	0.8.1	2	0.8.1
barrnap	0.9	2	0.9	0.8 0.7
beast2	2.5.0	3	2.5.1	2.4.7 2.4.4
bioperl∗	1.007002	5	1.007002	1.7.4 1.7.2 1.7.1 1.6.9242 1.6.923 1.6.901 1.6.9	9999
blat	36	3		35 34
bonsai	0.3	2			1.3.9
bowtie∗	1.2.2_p1	8	1.2.2_p1	1.2.22 1.2.0 1.1.23 1.1.1 1.0.1 1.0.02 0.12.72	v2.2.9.r9.g9c90266
busco	3.0.2	2			3.0.0
canu	1.8	4	1.83	1.7.1 1.7 1.6
cap3	2015-02-11	2	20091029
cd-hit	4.8.1	8	4.8.1	4.6.82 4.6.63 4.6.52 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	1.5.5	1.5.1 1.4.1 1.4.0
circos∗	0.69-6	5	0.69.6	0.69.5 0.69_4 0.69.4 0.69 0.66 0.64 0.552 0.49
clonalframeml	1.11	2	1.11
clustal-omega∗	1.2.4	8	1.2.47	1.2.1
clustalw∗	2.1	10	2.19	1.83
cutadapt∗	1.16	3	1.18	1.14
dwgsim	0.1.12	3	0.1.122	0.1.11	r159.39a1bbb
e-mem	1.0.1	2	1.0.1	1.0.0
edirect∗	9.70	2	10.2
elph	1.0.1	5	1.0.14
emboss∗	6.6.0	12	6.6.08	6.5.7 6.4.0 6.3.1 6.0.1
exabayes	1.5	2		1.4.1
exonerate	2.2.0	9	2.4.06	2.2.03
express-rna-seq	1.5.2	3		1.5.12
fasta	36.3.8g	5	36.3.8g2	36.3.8 36.3.5e 21.1.1
fastp	0.19.5	3	0.19.6	0.14.1
fasttree	2.1.10	6	2.1.104	2.1.9 2.1.82 2.1.7 2.1.4
fermi-lite	0.1	2	0.1
figtree	1.4.3	5	1.4.43	1.4.3 1.4.22 1.4 1.3.1
filtlong	0.2.0	2	0.2.0
finch-rs	0.1.8	2	0.1.9
fraggenescan	1.31	2		1.30
freebayes	1.2.0	5	1.2.03	1.1.0 1.0.2	1.0.1.r0.gefe685d 2017-08-23
gappa∗	0.2.0	3	1.3.3	1.3.2 1.3.1 1.2
gatk	4.0.11.0	4	4.0.11.0	4.0.7.0 4.0.6.0 2.4	9999
gblocks	0.91b	2	0.91b
gemma	0.98	3	0.98.1	0.98 0.97
gmap-gsnap∗	2018-07-04	2	2018.07.04
gzstream	1.5	5	1.54
harvest-tools	1.3	2	1.3	1.2
hisat2	2.1.0	7	2.1.03	2.0.52	2.1.0.232
hmmer	2.4i	13	3.2.17	3.1b24 3.1beta2 3.1_beta2 3.1b1 3.03 3 2.4i 2.3.22
Project	In Homebrew tap Brewsci/bio	Spread	Newest	Outdated	Ignored
idba	1.1.3	3	1.1.32	1.1.2
indelible	1.03	2	1.03
infernal∗	1.1.2	6	1.1.24	1.1.1 1.1rc4 1.0.22
iqtree	1.6.8	4	1.6.10	1.6.92 1.6.5 1.6.1 1.5.5 1.5.3 1.3.11.1
iva	1.0.8	3	1.0.9	1.0.8 0.10.1
jellyfish-k-mer	2.2.10	6	2.2.103	2.2.8 2.2.62 2.2.42 2.1.4 1.1.12 1.1.11 1.1.10 1.1.2
kaiju	1.6.3	2	1.6.3
kmc	3.1.0	3		2.3 2.0
kraken∗	1.1	5	1.13	0.10.5beta 0.1	r70.2c5f7ce 32.368a837
last	926	4	9632	938 921 869 830 712 490 393 299 230 189
lastz	1.04.00	2	1.04.00
libdivsufsort	2.0.1	8	2.0.17		9999
libmuscle∗	3.7	3	3.72
libpll	0.3.2	3	1.0.11	0.3.2 0.3.1
mash-genome-distance	2.1	3	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
meme-motif-discovery∗	5.0.4	4	5.0.4	4.12.0 4.11.2_p2
mhap	2.1.3	2	2.1.3	2.1.1 1.6
minced	0.3.0	2	0.3.2
minia	3.2.0	2	3.2.0	1.6906 1.6088 1.6067
miniasm	0.3	2	0.3	0.2
minimap	0.2	2	0.2
minimap2	2.16	4		2.152 2.102
mmtf-cpp∗	1.0.0	4	1.0.03
mosdepth	0.2.3	3	0.2.32
mothur	1.40.3	4	1.41.21	1.41.3 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
mrbayes	3.2.6	7	3.2.63	3.2.3 3.2.2 3.1.24
mummer	3.23	6	3.233	3.22 3.20	4.0.0.b2.2
muscle-sequence-alignment	3.8.1551	8	3.8.15513	3.8.315
nanopolish	0.10.2	3	0.11.0	0.10.22 0.9.0 0.5.0 0.4.0
newick-utils	1.6	4	1.62	1.5.0
nextflow	0.32.0	2	0.32.0
orfm	0.7.1	2	0.7.1
paml∗	4.9h	8	4.9i	4.9h3 4.9g 4.9e2 4.8 4.7 4.5 4.4e 4.4c
parsnp∗	1.2	2	1.2
pathvisio	3.3.0	2		3.2.4
phylip	3.697	8	3.6973	3.6963 3.695 3.694
phyml∗	3.3.20180621	6	3.3.201806213	3.3.20180214 3.3.201705302 3.2.0 2.4.5	r121.ab59039 20120412 20110919
phyx	0.999	2	0.999
pilon	1.22	2	1.23	1.22
porechop	0.2.3	3	0.2.4	0.2.3
prank∗	170427	4		150803 140603 0.0.170427 0.0.150803 0.0.140110
prokka	1.13	2	1.13.4
pymol∗	2.3.0	15	2.3.05	2.2.05 2.1.1 2.1.03 1.9.0.0.svn4184 1.8.6.04 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
python:matplotlib∗	2.2.3	32	3.0.39	3.0.24 3.0.1 3.0.0 2.2.44 2.2.313 2.2.26 2.2.1 2.2.0 2.1.23 2.1.12 2.1.0 2.0.22 2.0.1 2.0.04 1.5.34 1.5.2 1.5.15 1.5.02 1.4.32 1.4.22 1.4.1 1.4.0 1.3.13 1.3.0 1.2.1 1.2.04 1.1.1rc1.git20120423 1.0.0 0.99.1.23	9999 r26679.b9b02f189
r8s	1.81	2		1.80
racon	1.3.1	2	1.3.2	1.3.1
raxml∗	8.2.12	7	8.2.124	8.2.11 8.2.10 8.2.9 8.2.4 8.1.1 7.7.6 7.2.8 7.2.6
readseq	2.1.30	5			199302012 2.1.30 1
repeatmasker∗	4.0.7	4	4.0.8	4.0.5 4.0.1
Project	In Homebrew tap Brewsci/bio	Spread	Newest	Outdated	Ignored
rmblast	2.2.28	3	2.2.28	1.2
rtg-tools	3.9	2		3.8.4
salmid	0.122	2	0.1.23
salmon	0.9.1	4	0.13.1	0.12.0 0.9.1 0.7.2
sambamba	0.6.8	4	0.6.82	0.6.7
samblaster	0.1.24	2	0.1.24
sdsl-lite	2.1.1	4	2.1.12	2.0.3 v2.1.1.r132.gddb0fbbc
seq-gen	1.3.4	2	1.3.4	1.3.3 1.3.2
seqan	2.4.0	9	2.4.07	2.3.2 2.3.12 2.2.0 1.4.25 1.4.1 1.3.12 1.3	9999 r628.35e4fba r.fcad60a
seqkit	0.10.1	2		0.9.0
sga	0.10.15	3	0.10.152	0.10.14
smalt	0.7.6	2	0.7.6
snp-sites	2.4.0	2	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	4.3q
sortmerna	2.1	3	2.1b	2.1 2.0
staden-io-lib∗	1.14.11	4	1.14.11	1.14.9 1.14.8 1.14.62 1.13.7 1.13.5 1.12.42
stringtie	1.3.4d	4	1.3.5	1.3.4.d 1.2.1
sumaclust	1.0.31	2	1.0.31	1.0.20 1.0.10
tbl2asn	25.6	2		24.3
transabyss	2.0.1	2		1.5.3
transdecoder	5.3.0	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
trimmomatic	0.38	6	0.384	0.36 0.352 0.32
trinityrnaseq	2.8.3	2		2.6.6 2.5.1 2.2.0
trnascan-se	2.0.0	5	2.0.03	1.31 1.3.1
unicycler	0.4.7	2	0.4.7
varscan	2.4.3	3	2.4.3	2.4.2 2.3.9 2.3.7
vcflib∗	1.0.0	3	1.0.0.r1.130		v1.0.0.rc1.r127.gac59d4f
velvet	1.2.10	6	1.2.105	1.1.07 1.0.18
velvetoptimiser	2.2.6	2	2.2.6	2.2.5
verticalize	1.0.1	2			r9.57f8c91
viennarna	2.4.3	2	2.4.11
vsearch	2.9.0	4	2.10.4	2.10.3 2.9.1 2.8.0 2.7.1 2.4.3 2.3.4 1.1.3
vt	0.5772	2	0.5772
wise2	2.4.1	9	2.4.15	2.4.0_alpha 2.2.04

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).