Packages tagged bioinformatics

99 packages have this tag.

[Merge tag] (trustees only)

Related tags: library (81), program (51), gpl (44), bsd3 (19), mit (9), formal-languages (8), data-structures (6), algorithms (5), bindings (1), ffi (1), lgpl (1), linguistics (1)

Name
DLs
Rating
Description
Tags
Last U/L
Maintainer
ADPfusion610.0Efficient, high-level dynamic programming. (algorithms, bioinformatics, bsd3, data-structures, formal-languages, library)2017-03-06ChristianHoener
ADPfusionForest60.0Dynamic programming on tree and forest structures (bioinformatics, bsd3, formal-languages, library)2017-11-23ChristianHoener
ADPfusionSet70.0Dynamic programming for Set data structures. (algorithms, bioinformatics, bsd3, data-structures, formal-languages, library)2017-10-19ChristianHoener
AlignmentAlgorithms160.0Collection of alignment algorithms (algorithms, bioinformatics, data-structures, gpl, library, linguistics)2017-03-14ChristianHoener
BCMtools90.0Big Contact Map Tools (bioinformatics, library, mit, program)2015-05-05kaizhang
BioHMM630.0Libary for Hidden Markov Models in HMMER3 format. (bioinformatics, gpl, library)2017-06-09FlorianEggenhofer
Biobase190.0Base library for bioinformatics (bioinformatics, gpl, library)2011-04-08ChristianHoener
BiobaseBlast130.0BLAST-related tools (bioinformatics, gpl, library)2017-09-28ChristianHoener
BiobaseDotP60.0Vienna / DotBracket / ExtSS parsers (bioinformatics, gpl, library)2011-08-22ChristianHoener
BiobaseFR3D150.0Importer for FR3D resources (bioinformatics, gpl, library)2012-02-16ChristianHoener
BiobaseFasta130.0conduit-based FASTA parser (bioinformatics, gpl, library, program)2013-12-06ChristianHoener
BiobaseInfernal500.0Infernal data structures and tools (bioinformatics, gpl, library, program)2017-03-14ChristianHoener
BiobaseMAF70.0Multiple Alignment Format (bioinformatics, gpl, library)2011-07-29ChristianHoener
BiobaseNewick140.0Newick file format parser. (bioinformatics, bsd3, library, program)2017-07-07ChristianHoener
BiobaseTrainingData160.0RNA folding training data (bioinformatics, gpl, library, program)2011-09-29ChristianHoener
BiobaseTurner390.0Import Turner RNA parameters (bioinformatics, gpl, library)2013-04-25ChristianHoener
BiobaseTypes220.0Collection of types for bioinformatics (bioinformatics, bsd3, data-structures, library)2017-11-23ChristianHoener
BiobaseVienna380.0Import Vienna energy parameters (bioinformatics, gpl, library)2013-04-22ChristianHoener
BiobaseXNA930.0Efficient RNA/DNA/Protein Primary/Secondary Structure (bioinformatics, gpl, library, program)2017-11-23ChristianHoener
BlastHTTP300.0Libary to interface with the NCBI blast REST interface (bioinformatics, gpl, library)2018-03-12FlorianEggenhofer
CMCompare150.0Infernal covariance model comparison (bioinformatics, gpl, library, program)2012-11-22ChristianHoener
ClustalParser420.0Libary for parsing Clustal tools output (bioinformatics, gpl, library, program)2018-03-12FlorianEggenhofer
DnaProteinAlignment40.0Frameshift-aware alignment of protein sequences with DNA sequences (bioinformatics, gpl, library, program)2013-12-18ChristianHoener
EntrezHTTP190.0Libary to interface with the NCBI Entrez REST service. (bioinformatics, gpl, library)2017-08-10FlorianEggenhofer
ForestStructures140.0Tree- and forest structures (bioinformatics, bsd3, formal-languages, library)2017-07-07ChristianHoener
Forestry40.0Comparison of trees and forests. (bioinformatics, bsd3, formal-languages, library)2017-11-23ChristianHoener
FormalGrammars280.0(Context-free) grammars in formal language theory (bioinformatics, formal-languages, gpl, library, program)2017-08-31ChristianHoener
Genbank190.0Libary for processing the NCBI genbank format (bioinformatics, library, program)2014-10-26FlorianEggenhofer
Gene-CluEDO110.0Hox gene clustering (bioinformatics, gpl, library, program)2017-09-11ChristianHoener
GenussFold70.0MCFGs for Genus-1 RNA Pseudoknots (bioinformatics, formal-languages, gpl, library, program)2015-07-16ChristianHoener
GrammarProducts240.0Grammar products and higher-dimensional grammars (bioinformatics, formal-languages, gpl, library)2017-03-14ChristianHoener
MC-Fold-DP110.0Folding algorithm based on nucleotide cyclic motifs. (bioinformatics, gpl, library, program)2012-11-12ChristianHoener
MutationOrder110.0Most likely order of mutation events in RNA (bioinformatics, gpl, library, program)2017-10-24ChristianHoener
Nussinov78190.0Nussinov78 using the ADPfusion library. (bioinformatics, gpl, library, program)2012-11-07ChristianHoener
PDBtools100.0A library for analysis of 3-D protein coordinates (bioinformatics, gpl, library)2012-06-03GrantRotskoff
RNAFold170.0RNA secondary structure prediction (bioinformatics, gpl, library, program)2013-12-06ChristianHoener
RNAFoldProgs110.0RNA secondary structure folding (bioinformatics, gpl, program)2010-09-23ChristianHoener
RNAdesign160.0Multi-target RNA sequence design (bioinformatics, gpl, library, program)2014-02-13ChristianHoener
RNAdraw100.0Draw RNA secondary structures (bioinformatics, gpl, library, program)2014-02-03ChristianHoener
RNAlien392.0Unsupervized construction of RNA family models (bioinformatics, gpl, library, program)2017-03-13FlorianEggenhofer
RNAwolf180.0RNA folding with non-canonical basepairs and base-triplets. (bioinformatics, gpl, library, program)2011-09-29ChristianHoener
SelectSequencesFromMSA150.0Selects a representative subset of sequences from multiple sequence alignment. (bioinformatics, gpl, library, program)2018-03-12FlorianEggenhofer
StockholmAlignment282.0Libary for Stockholm aligmnent format (bioinformatics, gpl, library)2018-01-15FlorianEggenhofer
Taxonomy140.0Libary for parsing, processing and vizualization of taxonomy data (bioinformatics, gpl, library)2017-08-10FlorianEggenhofer
TaxonomyTools90.0Tool for parsing, processing, comparing and visualizing taxonomy data (bioinformatics, gpl, program)2017-01-26FlorianEggenhofer
ViennaRNA-bindings330.0ViennaRNA v2 bindings (bindings, bioinformatics, ffi, library)2017-11-23ChristianHoener
ViennaRNA-extras70.0ViennaRNA v2 extensions (bioinformatics, bsd3, library)2017-11-23ChristianHoener
ViennaRNAParser520.0Libary for parsing ViennaRNA package output (bioinformatics, gpl, library)2017-10-18FlorianEggenhofer
a50150.0Compare genome assemblies (bioinformatics, program)2013-07-23KetilMalde
adp-multi220.0ADP for multiple context-free languages (algorithms, bioinformatics, bsd3, data-structures, library)2013-05-29MaikRiechert
adp-multi-monadiccp130.0Subword construction in adp-multi using monadiccp (algorithms, bioinformatics, bsd3, data-structures, library)2013-05-29MaikRiechert
bamstats130.0A program to extract various information from BAM alignmnet files. (bioinformatics, library, program)2013-10-18KetilMalde
bio340.0A bioinformatics library (bioinformatics, library)2013-07-20GwernBranwen, KetilMalde
bioace80.0Library for reading ace assembly files (bioinformatics, library)2012-06-19DanFornika
bioalign150.0Data structures and helper functions for calculating alignments (bioinformatics, library)2012-06-19DanFornika
biocore150.0A bioinformatics library (bioinformatics, library)2013-01-07KetilMalde
biofasta100.0Library for reading fasta sequence files (bioinformatics, library)2013-01-10DanFornika
biofastq70.0A library for reading FASTQ files (bioinformatics, library)2012-10-23KetilMalde
biohazard420.0bioinformatics support library (bioinformatics, bsd3, library)2018-03-20ustenzel
biophd170.0Library for reading phd sequence files (bioinformatics, library)2015-05-20DanFornika
biopsl130.0Library and executables for working with PSL files (bioinformatics, library, program)2012-11-19KetilMalde
biosff150.0Library and executables for working with SFF files (bioinformatics, lgpl, library)2013-09-28KetilMalde
biostockholm220.0Parsing and rendering of Stockholm files (used by Pfam, Rfam and Infernal). (bioinformatics, bsd3, library)2015-07-21FelipeLessa
blastxml150.0Library for reading Blast XML output (bioinformatics, library)2014-10-29KetilMalde
blosum140.0BLOSUM generator (bioinformatics, gpl, library, program)2016-11-30GregorySchwartz
clustertools140.0Tools for manipulating sequence clusters (bioinformatics, program)2011-06-06GwernBranwen, KetilMalde
cmv201.5Detailed visualization of CMs, HMMs and their comparisions (bioinformatics, gpl, library, program)2018-01-28FlorianEggenhofer
convert-annotation110.0Convert the annotation of a gene to another in a delimited file using a variety of different databases. (bioinformatics, gpl, library, program)2018-02-07GregorySchwartz
dephd150.0Analyze quality of nucleotide sequences. (bioinformatics, program)2011-03-21GwernBranwen, KetilMalde
diversity470.0Quantify the diversity of a population (bioinformatics, gpl, library, program)2017-09-01GregorySchwartz
estreps70.0Repeats from ESTs (bioinformatics, program)2009-10-07GwernBranwen, KetilMalde
flower280.0Analyze 454 flowgrams (.SFF files) (bioinformatics, program)2013-09-19KetilMalde
flowsim200.0Simulate 454 pyrosequencing (bioinformatics, gpl, program)2013-11-19KetilMalde
gact80.0General Alignment Clustering Tool (bioinformatics, program)2012-03-26KetilMalde
hPDB420.0Protein Databank file format library (bioinformatics, bsd3, library)2017-12-02MichalGajda
hPDB-examples240.0Examples for hPDB library (bioinformatics, bsd3, program)2017-12-02MichalGajda
hTalos50.0Parser, print and manipulate structures in PDB file format. (bioinformatics, bsd3, library)2013-11-23MichalGajda
hemokit250.0Haskell port of the Emokit EEG project (bioinformatics, library, mit, program)2015-08-19NiklasHambuechen, PatrickChilton
korfu60.0The Korfu ORF Utility (bioinformatics, program)2010-09-10KetilMalde
memexml110.0Library for reading Meme XML output (bioinformatics, bsd3, library)2015-09-11FlorianEggenhofer
mmtf60.0Macromolecular Transmission Format implementation (bioinformatics, bsd3, library)2017-03-21zmactep
modify-fasta270.0Modify fasta (and CLIP) files in several optional ways (bioinformatics, gpl, library, program)2018-04-02GregorySchwartz
phybin200.0Utility for clustering phylogenetic trees in Newick format based on Robinson-Foulds distance. (bioinformatics, bsd3, library, program)2013-09-20RyanNewton
rank-product160.0Find the rank product of a data set. (bioinformatics, gpl, library)2017-04-11GregorySchwartz
rbr90.0Mask nucleotide (EST) sequences in Fasta format (bioinformatics, program)2010-09-09GwernBranwen, KetilMalde
samtools320.0Binding to the C samtools library (bioinformatics, library, mit)2016-05-30NicholasIngolia
samtools-conduit80.0Conduit interface to SAM/BAM format files through samtools (bioinformatics, library, mit, program)2014-11-29NicholasIngolia
samtools-enumerator90.0Enumerator interface to SamTools library (bioinformatics, library, mit)2012-01-21NicholasIngolia
samtools-iteratee110.0Iteratee interface to SamTools library (bioinformatics, library, mit)2014-01-24NicholasIngolia
seqloc300.0Handle sequence locations for bioinformatics (bioinformatics, library, mit)2015-01-16NicholasIngolia
seqloc-datafiles200.0Read and write BED and GTF format genome annotations (bioinformatics, library, mit, program)2015-03-20NicholasIngolia
sgrep60.0Sgrep - grep Fasta files for sequences matching a regular expression (bioinformatics, program)2010-09-13KetilMalde
simseq60.0Simulate sequencing with different models for priming and errors (bioinformatics, program)2008-03-08GwernBranwen
smiles140.0 (bioinformatics, bsd3, library)2017-08-15fonturacetamum
trimpolya60.0Search for, annotate and trim poly-A tail (bioinformatics, program)2009-12-15KetilMalde
varan80.0Process mpileup output to identify significant differences (bioinformatics, program)2014-12-01KetilMalde
vcf72.0A package to parse VCF files inspired in similar python libraries (bioinformatics, library, mit)2017-08-10juanpaucar
xml2x130.0Convert BLAST output in XML format to CSV or HTML (bioinformatics, program)2009-10-07GwernBranwen, KetilMalde
xsact90.0Cluster EST sequences (bioinformatics, program)2010-09-09GwernBranwen, KetilMalde