Yuri Victorovich 113887decc biology/igv: Broken on 11 ... Reported by: fallout (cherry picked from commit 70ea3d2756)		2021-08-21 12:08:47 -07:00
..
abyss	biology/abyss: Broken on 11	2021-08-21 12:03:21 -07:00
ad2vcf	biology/ad2vcf: Remove comment used to silence portlint	2021-06-11 10:39:02 -05:00
artemis
avida
babel
bamtools
bbmap
bcftools	math/gsl: update to 2.7	2021-06-16 21:31:27 +02:00
bedtools
bioawk
biococoa
biolibc	biology/biolibc: Remove comment used to silence portlint	2021-06-11 10:38:27 -05:00
bioparser
biosoup
biostar-tools	biology/biostar-tools: Add biology/py-goatools to metaport depends	2021-07-02 12:03:10 -05:00
bolt-lmm
bowtie
bowtie2	biology/bowtie2: Update to 2.4.4	2021-05-24 11:35:43 -05:00
bwa
canu
cd-hit	biology/cd-hit: fix build on powerpc	2021-06-10 00:35:36 +00:00
cdbfasta
checkm
clustal-omega
clustalw
cufflinks
cytoscape	biology/cytoscape: mark unconditionally BROKEN	2021-05-12 14:55:52 +03:00
ddocent
diamond
dsr-pdb
edlib
emboss
exonerate
fasta
fasta3
fastahack
fastdnaml
fastool
fastp
fastqc
fasttree	biology/fasttree: fix build on armv7	2021-06-15 08:41:19 +00:00
fastx-toolkit
figtree
fluctuate
freebayes
garlic
gatk
gcta
gemma	math/gsl: update to 2.7	2021-06-16 21:31:27 +02:00
generand
gff2ps
gmap
gperiodic
graphlan
groopm
haplohseq
hhsuite
hisat2
hmmer
htslib
hyphy	biology/hyphy: Update to 2.5.31	2021-06-05 20:00:24 -03:00
igv	biology/igv: Broken on 11	2021-08-21 12:08:47 -07:00
infernal
iolib	biology/iolib: Drop maintainership	2021-05-19 20:56:24 +01:00
iqtree
jalview	biology/jalview: Fix build	2021-06-27 05:30:39 -04:00
jellyfish
kallisto
lamarc
libbigwig
libgtextutils
libsbml	biology/libsbml: Rename LIBXML option to LIBXML2	2021-05-12 05:46:56 +08:00
linux-foldingathome	biology/linux-foldingathome: Update to 7.6.21	2021-06-25 19:13:19 +02:00
mafft
mapm3
migrate
minimap2	biology/minimap2: Update to 2.20	2021-05-29 16:06:34 -05:00
mmseqs2	biology/mmseqs2: Fix runtime error when built with clang	2021-06-29 09:04:48 -05:00
molden	graphics/mesa-libs: Bump reverse deps for libglvnd	2021-06-22 11:53:08 -07:00
mopac
mothur
mrbayes	*: Remove unnecessary 'port' argument from USES=readline	2021-05-15 09:14:04 +02:00
mummer
muscle
ncbi-blast+	biology/ncbi-blast+: Update to 2.12.0	2021-07-02 11:48:20 -05:00
ncbi-cxx-toolkit
ncbi-entrez-direct
ncbi-toolkit
ncbi-vdb
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: Classify peaks based on GFF features	2021-06-14 11:40:33 -05:00
pear-merger
phrap
phred
phyml
picard-tools
plink
pooler
primer3
prodigal
prodigy-lig
protomol
psi88
py-bigwig
py-biom-format
py-biopython
py-bx-python
py-crossmap
py-cutadapt
py-dnaio
py-ete3
py-Genesis-PyAPI
py-gffutils
py-goatools	biology/py-goatools: Tools for processing and visualizing Gene Ontology terms	2021-07-02 12:00:29 -05:00
py-gtfparse
py-hits
py-loompy
py-macs2
py-multiqc
py-orange3-bioinformatics
py-orange3-single-cell
py-pandas-charm
py-pyfaidx
py-pysam
py-resdk	biology/py-resdk: Update 13.2.0 -> 13.3.0	2021-05-24 00:26:50 -07:00
py-scikit-bio
py-xenaPython
pyfasta
python-nexus
rainbow
rampler
readseq
recombine
ruby-bio
rubygem-bio	biology/rubygem-bio: Update to 2.0.2	2021-07-01 04:44:06 +08:00
rubygem-bio-executables
rubygem-bio-old-biofetch-emulator
rubygem-bio-shell
samtools
scrm
seaview
seqan
seqan1
seqan3	biology/seqan3: Update 3.0.2-1195 -> 3.0.3	2021-05-29 22:38:08 -07:00
seqan-apps	biology/seqan-apps: fix packaging on armv7	2021-06-21 08:11:25 +00:00
seqio
seqkit	biology/seqkit: Update 0.16.0 -> 0.16.1	2021-05-19 23:02:26 -07:00
seqtk
sim4
slclust
smithwaterman
snpeff
spoa
sra-tools	biology/sra-tools: NCBI's toolkit for handling data in INSDC Sequence Read Archives	2021-06-22 12:55:15 -05:00
stacks
star
stringtie
subread
tabixpp
taxonkit	biology/taxonkit: New port: Practical and efficient NCBI taxonomy toolkit	2021-05-26 15:25:22 -07:00
treekin	math/lapack: +math/blas et al., upgrade to 3.9.1	2021-06-13 19:48:12 +02:00
treepuzzle
trimadap
trimmomatic
tRNAscan-SE
ucsc-userapps	biology/ucsc-userapps: Update to v414	2021-05-15 10:23:08 -05:00
ugene	biology/ugene: update Unipro UGENE to version 39.0.	2021-06-25 17:56:47 +00:00
unikmer	biology/unikmer: Update 0.18.0 -> 0.18.1	2021-06-24 15:06:35 -07:00
vcf2hap	biology/vcf2hap: Remove comment used to silence portlint	2021-06-11 10:40:11 -05:00
vcf-split	biology/vcf-split: Update to 0.1.2	2021-06-11 10:05:19 -05:00
vcflib
vcftools
velvet
viennarna	math/gsl: update to 2.7	2021-06-16 21:31:27 +02:00
vsearch	biology/vsearch: Update to 2.17.1	2021-06-19 07:33:58 -05:00
vt
wise
Makefile	biology/py-goatools: Tools for processing and visualizing Gene Ontology terms	2021-07-02 12:00:29 -05:00