| .. |
|
abyss
|
|
|
|
ad2vcf
|
biology/ad2vcf: Update to 0.1.5
|
2022-03-15 16:39:32 -05:00 |
|
artemis
|
|
|
|
avida
|
|
|
|
babel
|
|
|
|
bamtools
|
|
|
|
bamutil
|
|
|
|
bbmap
|
|
|
|
bcftools
|
|
|
|
bedtools
|
|
|
|
bfc
|
|
|
|
bio-mocha
|
|
|
|
bioawk
|
|
|
|
biococoa
|
|
|
|
biolibc
|
biology/biolibc: Update to 0.2.2
|
2022-03-15 16:35:22 -05:00 |
|
biolibc-tools
|
biology/biolibc-tools: Update to 0.1.2
|
2022-03-15 16:36:49 -05:00 |
|
bioparser
|
|
|
|
biosig
|
biology/biosig: Update 2.3.3 -> 2.4.0
|
2022-03-20 12:43:56 -07:00 |
|
biosoup
|
|
|
|
biostar-tools
|
|
|
|
bolt-lmm
|
biology/bolt-lmm: Update to 2.3.6
|
2022-03-20 10:29:01 -05:00 |
|
bowtie
|
|
|
|
bowtie2
|
|
|
|
bwa
|
|
|
|
canu
|
|
|
|
cd-hit
|
|
|
|
cdbfasta
|
|
|
|
checkm
|
biology/checkm: Fix build with setuptools 58.0.0+
|
2022-03-25 21:38:04 +08:00 |
|
clustal-omega
|
|
|
|
clustalw
|
|
|
|
cufflinks
|
|
|
|
cytoscape
|
|
|
|
ddocent
|
|
|
|
diamond
|
|
|
|
dsr-pdb
|
biology/dsr-pdb: Remove -pg (mcount instrumentation) flag
|
2022-03-21 17:07:11 -07:00 |
|
edlib
|
|
|
|
emboss
|
|
|
|
erminej
|
|
|
|
exonerate
|
|
|
|
fasta
|
|
|
|
fasta3
|
|
|
|
fastahack
|
|
|
|
fastdnaml
|
|
|
|
fastool
|
|
|
|
fastp
|
|
|
|
fastq-trim
|
biology/fastq-trim: Update to 0.1.1.4
|
2022-03-21 16:19:36 -05:00 |
|
fastqc
|
|
|
|
fasttree
|
|
|
|
fastx-toolkit
|
|
|
|
figtree
|
|
|
|
flash
|
|
|
|
fluctuate
|
|
|
|
freebayes
|
|
|
|
garlic
|
|
|
|
gatk
|
|
|
|
gcta
|
|
|
|
gemma
|
|
|
|
generand
|
|
|
|
gff2ps
|
|
|
|
gffread
|
|
|
|
gmap
|
|
|
|
gperiodic
|
|
|
|
graphlan
|
|
|
|
groopm
|
biology/groopm: Fix build with setuptools 58.0.0+
|
2022-03-25 21:38:04 +08:00 |
|
haplohseq
|
|
|
|
hhsuite
|
|
|
|
hisat2
|
|
|
|
hmmer
|
|
|
|
htslib
|
|
|
|
hyphy
|
|
|
|
igv
|
|
|
|
infernal
|
*/*: fix trailing whitespace in pkg-descr's
|
2022-04-01 18:09:49 +03:00 |
|
iolib
|
|
|
|
iqtree
|
|
|
|
jalview
|
|
|
|
jellyfish
|
|
|
|
kallisto
|
|
|
|
lamarc
|
|
|
|
libbigwig
|
|
|
|
libgff
|
|
|
|
libgtextutils
|
|
|
|
libneurosim
|
|
|
|
libnuml
|
textproc/libxml2: bump all dependencies
|
2022-03-26 09:27:27 +01:00 |
|
libsbml
|
textproc/libxml2: bump all dependencies
|
2022-03-26 09:27:27 +01:00 |
|
libsedml
|
textproc/libxml2: bump all dependencies
|
2022-03-26 09:27:27 +01:00 |
|
linux-foldingathome
|
|
|
|
mafft
|
|
|
|
mapm3
|
|
|
|
migrate
|
|
|
|
minimap2
|
|
|
|
mmseqs2
|
|
|
|
molden
|
|
|
|
mopac
|
|
|
|
mothur
|
|
|
|
mrbayes
|
|
|
|
mummer
|
|
|
|
muscle
|
|
|
|
ncbi-blast+
|
devel/grpc: Update to 1.45.0
|
2022-03-31 06:02:45 +08:00 |
|
ncbi-cxx-toolkit
|
|
|
|
ncbi-entrez-direct
|
*/*: Bump PORTREVISION after lang/go 1.18 update
|
2022-03-30 03:01:44 -04:00 |
|
ncbi-toolkit
|
|
|
|
ncbi-vdb
|
textproc/libxml2: bump all dependencies
|
2022-03-26 09:27:27 +01:00 |
|
ngs-sdk
|
|
|
|
p5-AcePerl
|
|
|
|
p5-Bio-ASN1-EntrezGene
|
|
|
|
p5-Bio-Cluster
|
|
|
|
p5-Bio-Coordinate
|
|
|
|
p5-Bio-Das
|
|
|
|
p5-Bio-Das-Lite
|
|
|
|
p5-Bio-DB-EMBL
|
|
|
|
p5-Bio-DB-NCBIHelper
|
|
|
|
p5-Bio-FeatureIO
|
|
|
|
p5-Bio-GFF3
|
|
|
|
p5-Bio-Glite
|
|
|
|
p5-Bio-Graphics
|
|
|
|
p5-Bio-MAGETAB
|
|
|
|
p5-Bio-NEXUS
|
|
|
|
p5-Bio-Phylo
|
|
|
|
p5-Bio-SCF
|
|
|
|
p5-Bio-Variation
|
|
|
|
p5-BioPerl
|
|
|
|
p5-BioPerl-Run
|
|
|
|
p5-transdecoder
|
|
|
|
p5-TrimGalore
|
|
|
|
paml
|
|
|
|
pbbam
|
|
|
|
pbseqan
|
|
|
|
peak-classifier
|
biology/peak-classifier: Update to 0.1.3
|
2022-03-15 16:41:51 -05:00 |
|
pear-merger
|
|
|
|
phrap
|
|
|
|
phred
|
|
|
|
phyml
|
|
|
|
picard-tools
|
|
|
|
plink
|
|
|
|
pooler
|
|
|
|
primer3
|
|
|
|
prodigal
|
|
|
|
prodigy-lig
|
|
|
|
protomol
|
|
|
|
psi88
|
|
|
|
py-bcbio-gff
|
|
|
|
py-biom-format
|
|
|
|
py-biopython
|
|
|
|
py-bx-python
|
|
|
|
py-crossmap
|
biology/py-crossmap: Fix build with setuptools 58.0.0+
|
2022-03-25 21:38:04 +08:00 |
|
py-cutadapt
|
|
|
|
py-deeptools
|
|
|
|
py-deeptoolsintervals
|
|
|
|
py-dna-features-viewer
|
|
|
|
py-dnaio
|
|
|
|
py-ete3
|
|
|
|
py-Genesis-PyAPI
|
|
|
|
py-gffutils
|
|
|
|
py-goatools
|
|
|
|
py-gtfparse
|
|
|
|
py-hits
|
|
|
|
py-libnuml
|
|
|
|
py-libsedml
|
|
|
|
py-loompy
|
|
|
|
py-macs2
|
|
|
|
py-multiqc
|
|
|
|
py-ont-fast5-api
|
biology/py-ont-fast5-api: Update to 4.0.2
|
2022-03-25 11:37:29 -05:00 |
|
py-orange3-bioinformatics
|
|
|
|
py-orange3-single-cell
|
|
|
|
py-pandas-charm
|
|
|
|
py-py2bit
|
|
|
|
py-pybigwig
|
|
|
|
py-pyfaidx
|
|
|
|
py-pysam
|
|
|
|
py-PySCeS
|
|
|
|
py-python-libsbml
|
|
|
|
py-pywgsim
|
|
|
|
py-resdk
|
|
|
|
py-scikit-bio
|
|
|
|
py-xenaPython
|
|
|
|
pyfasta
|
|
|
|
python-nexus
|
biology/python-nexus: Fix build with setuptools 58.0.0+
|
2022-03-25 21:38:05 +08:00 |
|
rainbow
|
|
|
|
rampler
|
|
|
|
readseq
|
|
|
|
recombine
|
|
|
|
ruby-bio
|
|
|
|
rubygem-bio
|
|
|
|
rubygem-bio-executables
|
|
|
|
rubygem-bio-old-biofetch-emulator
|
|
|
|
rubygem-bio-shell
|
|
|
|
sam2pairwise
|
|
|
|
samtools
|
|
|
|
scrm
|
|
|
|
seaview
|
|
|
|
seqan
|
|
|
|
seqan1
|
|
|
|
seqan3
|
|
|
|
seqan-apps
|
|
|
|
seqio
|
|
|
|
seqkit
|
*/*: Bump PORTREVISION after lang/go 1.18 update
|
2022-03-30 03:01:44 -04:00 |
|
seqtk
|
|
|
|
sigviewer
|
|
|
|
sim4
|
|
|
|
slclust
|
|
|
|
smithwaterman
|
|
|
|
snpeff
|
|
|
|
spoa
|
|
|
|
sra-tools
|
textproc/libxml2: bump all dependencies
|
2022-03-26 09:27:27 +01:00 |
|
stacks
|
|
|
|
star
|
|
|
|
stringtie
|
|
|
|
subread
|
|
|
|
tabixpp
|
|
|
|
taxonkit
|
*/*: Bump PORTREVISION after lang/go 1.18 update
|
2022-03-30 03:01:44 -04:00 |
|
treekin
|
|
|
|
treepuzzle
|
|
|
|
trimadap
|
|
|
|
trimmomatic
|
|
|
|
tRNAscan-SE
|
|
|
|
ucsc-userapps
|
|
|
|
ugene
|
|
|
|
unikmer
|
*/*: Bump PORTREVISION after lang/go 1.18 update
|
2022-03-30 03:01:44 -04:00 |
|
vcf2hap
|
biology/vcf2hap: Update to 0.1.5
|
2022-03-15 16:45:04 -05:00 |
|
vcf-split
|
biology/vcf-split: Update to 0.1.4
|
2022-03-15 16:43:40 -05:00 |
|
vcflib
|
|
|
|
vcftools
|
|
|
|
velvet
|
|
|
|
viennarna
|
|
|
|
vsearch
|
|
|
|
vt
|
|
|
|
wise
|
|
|
|
Makefile
|
biology/fastq-trim: Lightening fast sequence read trimmer
|
2022-03-19 07:25:58 -05:00 |
