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sci-biology/bioperl-network
Perl tools for bioinformatics - Analysis of protein-protein interaction networks
sci-biology/prosite
A protein families and domains database
sci-biology/aaindex
Amino acid indices and similarity matrices
sci-biology/embassy
A meta-package for installing all EMBASSY packages (EMBOSS add-ons)
sci-biology/muscle
Multiple sequence comparison by log-expectation
sci-biology/embassy-signature
EMBOSS integrated version of Protein signature add-on package
sci-biology/phylip
The PHYLogeny Inference Package
sci-biology/hmmer
Sequence analysis using profile hidden Markov models
sci-biology/embassy-topo
EMBOSS integrated version of Transmembrane protein display
sci-biology/mummer
A rapid whole genome aligner
sci-biology/tree-puzzle
Maximum likelihood analysis for nucleotide, amino acid, and two-state data
sci-biology/wise
Intelligent algorithms for DNA searches
sci-biology/embassy-iprscan
EMBOSS integrated version of InterProScan motif detection add-on package
sci-biology/probcons
Probabilistic Consistency-based Multiple Alignment of Amino Acid Sequences
sci-biology/bwa
Burrows-Wheeler Alignment Tool, a fast short genomic sequence aligner
sci-biology/treeviewx
A phylogenetic tree viewer
sci-biology/embassy-hmmer
EMBOSS integrated version of HMMER wrapper - sequence analysis with profile HMMs
sci-biology/velvet
A sequence assembler for very short reads
sci-biology/cutg
Codon usage tables calculated from GenBank
sci-biology/embassy-structure
EMBOSS integrated version of Protein structure add-on package
sci-biology/rebase
A restriction enzyme database
sci-biology/bioperl-run
Perl wrapper modules for key bioinformatics applications
sci-biology/primer3
Primer Design for PCR reactions
sci-biology/qrna
Prototype ncRNA genefinder
sci-biology/sim4
A program to align cDNA and genomic DNA
sci-biology/poa
Fast multiple sequence alignments using partial-order graphs
sci-biology/embassy-domalign
EMBOSS integrated version of Protein domain alignment add-on package
sci-biology/rnaview
Generates 2D displays of RNA/DNA secondary structures with tertiary interactions
sci-biology/embassy-phylipnew
EMBOSS integrated version of The Phylogeny Inference Package
sci-biology/biosql
A generic bioinformatics relational database model
sci-biology/mafft
Multiple sequence alignments using a variety of algorithms
sci-biology/embassy-domainatrix
EMBOSS integrated version of Protein domain analysis add-on package
sci-biology/clustalw-mpi
An MPI implemention of the ClustalW general purpose multiple alignment algorithm
sci-biology/maq
Mapping and Assembly with Qualities, mapping NGS reads to reference genomes
sci-biology/glimmerhmm
A eukaryotic gene finding system from TIGR
sci-biology/stride
Protein secondary structure assignment from atomic coordinates
sci-biology/lagan
The LAGAN suite of tools for whole-genome multiple alignment of genomic DNA
sci-biology/t-coffee
A multiple sequence alignment package
sci-biology/embassy-emnu
EMBOSS integrated version of Simple menu of EMBOSS applications
sci-biology/augustus
Eukaryotic gene predictor
sci-biology/paml
Phylogenetic Analysis by Maximum Likelihood
sci-biology/bowtie
Popular short read aligner for Next-generation sequencing data
sci-biology/embassy-domsearch
EMBOSS integrated version of Protein domain search add-on package
sci-biology/kalign
Global and progressive multiple sequence alignment
sci-biology/embassy-esim4
EMBOSS integrated version of sim4 - Alignment of cDNA and genomic DNA
sci-biology/prank
Probabilistic Alignment Kit
sci-biology/prints
A protein motif fingerprint database
sci-biology/embassy-cbstools
EMBOSS integrated version of Applications from the CBS group
sci-biology/clustalx
Graphical interface for the ClustalW multiple alignment program
sci-biology/plink
Whole genome association analysis toolset