..
abyss
biology/abyss: fix build on big-endian architectures
2019-06-21 11:43:09 +00:00
artemis
avida
babel
bamtools
bcftools
bedtools
biococoa
bolt-lmm
biology/bolt-lmm: Mixed model association testing and variance component analysis
2019-05-26 03:36:49 +00:00
bowtie
bowtie2
biology/bowtie2: Clarify CPU-specificity
2019-04-24 17:41:27 +00:00
bwa
canu
cd-hit
cdbfasta
checkm
chemeq
clustal-omega
clustalw
consed
cufflinks
biology/cufflinks: Fix build on i386 by removing the hard-coded -m64
2019-05-29 07:02:28 +00:00
cytoscape
ddocent
biology/ddocent: Upgrade to 2.7.8
2019-05-04 15:09:10 +00:00
diamond
dsr-pdb
emboss
exonerate
fasta
fasta3
fastahack
fastdnaml
fastool
fastp
biology/fastp: Remove redundant USE_GCC
2019-05-20 23:41:08 +00:00
fastqc
fasttree
fastx-toolkit
figtree
fluctuate
freebayes
garlic
gatk
gemma
biology/gemma: Lowercase PORTNAME, remove unnecesary USE_GCC
2019-05-18 22:41:15 +00:00
gff2ps
gmap
Enable workaround for building on powerpc64.
2019-06-21 11:15:08 +00:00
gperiodic
graphlan
grappa
groopm
hhsuite
biology/hhsuite: Fix build on platforms where SIMD instruction set doesn't exist or isn't detected.
2019-05-22 02:50:56 +00:00
hisat2
hmmer
htslib
hyphy
igv
biology/igv: Update 2.5.2 -> 2.5.3
2019-06-01 20:49:20 +00:00
infernal
iolib
iqtree
biology/iqtree: Update to version 1.6.11
2019-06-24 21:47:34 +00:00
jalview
jellyfish
biology/jellyfish: Upgrade to 2.2.10, patch for powerpc64
2019-05-13 16:23:35 +00:00
kallisto
biology/kallisto: Upgrade to 0.46.0
2019-06-12 15:24:55 +00:00
lagan
lamarc
libgtextutils
libsbml
Use USES=pathfix
2019-06-22 21:48:14 +00:00
linux-foldingathome
mafft
mapm3
migrate
minimap2
biology/minimap2: Upgrade to 2.17
2019-05-05 14:56:07 +00:00
molden
mopac
mothur
biology/mothur: Update 1.42.1-3 -> 1.42.2
2019-06-19 23:54:44 +00:00
mrbayes
mummer
muscle
ncbi-blast+
biology/ncbi-blast+: Fix build on powerpc64, add run dep for update_blastdb.pl
2019-06-14 00:37:59 +00:00
ncbi-cxx-toolkit
ncbi-toolkit
ngs-sdk
Mark this port as not buildable on powerpc64:
2019-06-25 12:17:04 +00:00
p5-AcePerl
p5-Bio-ASN1-EntrezGene
p5-Bio-Cluster
p5-Bio-Coordinate
p5-Bio-Das
p5-Bio-Das-Lite
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-BioPerl
p5-BioPerl-Run
p5-transdecoder
p5-TrimGalore
paml
pbbam
pbcopper
pbseqan
pear-merger
phrap
phred
phylip
phyml
- Update to 3.3.20190321
2019-05-20 09:17:29 +00:00
plinkseq
primer3
prodigal
prodigy-lig
protomol
psi88
py-biom-format
py-biopython
py-bx-python
biology/py-bx-python: Update 0.8.2 -> 0.8.4
2019-06-19 08:08:31 +00:00
py-cutadapt
biology/py-cutadapt: Upgrade to 2.3
2019-04-27 01:26:17 +00:00
py-dnaio
py-fastTSNE
devel/openmp: phase out
2019-05-08 16:05:53 +00:00
py-Genesis-PyAPI
py-gffutils
py-gtfparse
py-loompy
py-macs2
py-orange3-bioinformatics
py-orange3-single-cell
py-pyfaidx
py-pysam
py-xenaPython
pycogent
pyfasta
python-nexus
rainbow
recombine
ruby-bio
rubygem-bio
samtools
seaview
seqan
seqan1
seqan-apps
seqio
seqtk
seqtools
sim4
slclust
smithwaterman
stacks
biology/stacks: Remove obsolete pkg-message regarding web interface
2019-05-10 21:15:42 +00:00
star
biology/star: Force newer GCC on platforms with GCC 4.2 base
2019-05-02 00:39:51 +00:00
stringtie
t_coffee
tabixpp
treekin
New port: biology/treekin: Efficient computation of RNA folding dynamics
2019-06-15 20:37:06 +00:00
treepuzzle
trimadap
biology/trimadap: Mark only for amd64 and i386
2019-05-11 00:18:24 +00:00
trimmomatic
tRNAscan-SE
biology/tRNAscan-SE: Update to 2.0.3
2019-06-08 01:31:18 +00:00
ugene
unanimity
Clean up plist
2019-04-25 13:25:50 +00:00
vcflib
vcftools
velvet
viennarna
biology/viennarna: Make it less/not prone to failures due to hardcoded C++ library name
2019-06-24 19:30:15 +00:00
vsearch
biology/vsearch: Update to 2.13.4
2019-05-11 13:42:33 +00:00
wise
Makefile
New port: biology/viennarna: Alignment tools for the structural analysis of RNA
2019-06-24 09:29:05 +00:00
