Packages tagged bioinformatics

96 packages have this tag.

[Merge tag] (trustees only)

Related tags: library (78), gpl (64), program (51), bsd3 (16), mit (9), data-structures (6), formal-languages (6), lgpl (6), algorithms (5), benchmark (3), bindings (1), ffi (1), ...

Name
DLs
Rating
Description
Tags
Last U/L
Maintainer
ADPfusion2010.0Efficient, high-level dynamic programming. (algorithms, bioinformatics, bsd3, data-structures, formal-languages, library)2017-03-06ChristianHoener
ADPfusionSet450.0Dynamic programming for Set data structures. (algorithms, bioinformatics, bsd3, data-structures, formal-languages, library)2017-10-19ChristianHoener
AlignmentAlgorithms650.0Collection of alignment algorithms (algorithms, bioinformatics, data-structures, gpl, library, linguistics)2017-03-14ChristianHoener
BCMtools230.0Big Contact Map Tools (bioinformatics, library, mit, program)2015-05-05kaizhang
BioHMM1560.0Libary for Hidden Markov Models in HMMER3 format. (bioinformatics, gpl, library)2017-06-09FlorianEggenhofer
Biobase490.0Base library for bioinformatics (bioinformatics, gpl, library)2011-04-08ChristianHoener
BiobaseBlast340.0BLAST-related tools (bioinformatics, gpl, library)2017-09-28ChristianHoener
BiobaseDotP130.0Vienna / DotBracket / ExtSS parsers (bioinformatics, gpl, library)2011-08-22ChristianHoener
BiobaseFR3D420.0Importer for FR3D resources (bioinformatics, gpl, library)2012-02-16ChristianHoener
BiobaseFasta500.0conduit-based FASTA parser (bioinformatics, gpl, library, program)2013-12-06ChristianHoener
BiobaseInfernal1240.0Infernal data structures and tools (benchmark, bioinformatics, gpl, library, program)2017-03-14ChristianHoener
BiobaseMAF140.0Multiple Alignment Format (bioinformatics, gpl, library)2011-07-29ChristianHoener
BiobaseNewick300.0Newick file format parser. (bioinformatics, bsd3, library, program)2017-07-07ChristianHoener
BiobaseTrainingData440.0RNA folding training data (bioinformatics, gpl, library, program)2011-09-29ChristianHoener
BiobaseTurner1000.0Import Turner RNA parameters (bioinformatics, gpl, library)2013-04-25ChristianHoener
BiobaseTypes550.0Collection of types for bioinformatics (bioinformatics, bsd3, data-structures, library)2017-03-13ChristianHoener
BiobaseVienna880.0Import Vienna energy parameters (bioinformatics, gpl, library)2013-04-22ChristianHoener
BiobaseXNA2260.0Efficient RNA/DNA representations (bioinformatics, gpl, library, program)2017-03-06ChristianHoener
BlastHTTP1110.0Libary to interface with the NCBI blast REST interface (bioinformatics, gpl, library)2016-11-12FlorianEggenhofer
CMCompare380.0Infernal covariance model comparison (bioinformatics, gpl, library, program)2012-11-22ChristianHoener
ClustalParser960.0Libary for parsing Clustal tools output (bioinformatics, gpl, library, program)2017-02-06FlorianEggenhofer
DnaProteinAlignment140.0Frameshift-aware alignment of protein sequences with DNA sequences (bioinformatics, gpl, library, program)2013-12-18ChristianHoener
EntrezHTTP500.0Libary to interface with the NCBI Entrez REST service. (bioinformatics, gpl, library)2017-08-10FlorianEggenhofer
ForestStructures360.0Tree- and forest structures (benchmark, bioinformatics, bsd3, formal-languages, library)2017-07-07ChristianHoener
FormalGrammars750.0(Context-free) grammars in formal language theory (bioinformatics, formal-languages, gpl, library, program)2017-08-31ChristianHoener
Genbank500.0Libary for processing the NCBI genbank format (bioinformatics, gpl, library, program)2014-10-26FlorianEggenhofer
Gene-CluEDO180.0Hox gene clustering (bioinformatics, gpl, library, program)2017-09-11ChristianHoener
GenussFold210.0MCFGs for Genus-1 RNA Pseudoknots (bioinformatics, formal-languages, gpl, library, program)2015-07-16ChristianHoener
GrammarProducts590.0Grammar products and higher-dimensional grammars (bioinformatics, formal-languages, gpl, library)2017-03-14ChristianHoener
MC-Fold-DP200.0Folding algorithm based on nucleotide cyclic motifs. (bioinformatics, gpl, library, program)2012-11-12ChristianHoener
MutationOrder500.0Most likely order of mutation events in RNA (bioinformatics, gpl, library, program)2017-10-24ChristianHoener
Nussinov78350.0Nussinov78 using the ADPfusion library. (bioinformatics, gpl, library, program)2012-11-07ChristianHoener
PDBtools200.0A library for analysis of 3-D protein coordinates (bioinformatics, gpl, library)2012-06-03GrantRotskoff
RNAFold520.0RNA secondary structure prediction (bioinformatics, gpl, library, program)2013-12-06ChristianHoener
RNAFoldProgs200.0RNA secondary structure folding (bioinformatics, gpl, program)2010-09-23ChristianHoener
RNAdesign300.0Multi-target RNA sequence design (bioinformatics, gpl, library, program)2014-02-13ChristianHoener
RNAdraw130.0Draw RNA secondary structures (bioinformatics, gpl, library, program)2014-02-03ChristianHoener
RNAlien732.0Unsupervized construction of RNA family models (bioinformatics, gpl, library, program)2017-03-13FlorianEggenhofer
RNAwolf350.0RNA folding with non-canonical basepairs and base-triplets. (bioinformatics, gpl, library, program)2011-09-29ChristianHoener
SelectSequencesFromMSA200.0SelectSequences is a tool for selection of a represenative subset of sequences from a multiple sequence alignment in clustal format. (bioinformatics, gpl, library, program)2017-04-24FlorianEggenhofer
StockholmAlignment450.0Libary for Stockholm aligmnent format (bioinformatics, gpl, library)2017-05-23FlorianEggenhofer
Taxonomy430.0Libary for parsing, processing and vizualization of taxonomy data (bioinformatics, gpl, library)2017-08-10FlorianEggenhofer
TaxonomyTools150.0Tool for parsing, processing, comparing and visualizing taxonomy data (bioinformatics, gpl, program)2017-01-26FlorianEggenhofer
ViennaRNA-bindings650.0ViennaRNA v2 bindings (bindings, bioinformatics, ffi, library)2017-03-06ChristianHoener
ViennaRNAParser1270.0Libary for parsing ViennaRNA package output (bioinformatics, gpl, library)2017-10-18FlorianEggenhofer
a50220.0Compare genome assemblies (bioinformatics, gpl, program)2013-07-23KetilMalde
adp-multi350.0ADP for multiple context-free languages (algorithms, bioinformatics, bsd3, data-structures, library)2013-05-29MaikRiechert
adp-multi-monadiccp190.0Subword construction in adp-multi using monadiccp (algorithms, bioinformatics, bsd3, data-structures, library)2013-05-29MaikRiechert
bamstats220.0A program to extract various information from BAM alignmnet files. (bioinformatics, gpl, library, program)2013-10-18KetilMalde
bio750.0A bioinformatics library (bioinformatics, lgpl, library)2013-07-20GwernBranwen, KetilMalde
bioace160.0Library for reading ace assembly files (bioinformatics, gpl, library)2012-06-19DanFornika
bioalign600.0Data structures and helper functions for calculating alignments (bioinformatics, gpl, library)2012-06-19DanFornika
biocore350.0A bioinformatics library (bioinformatics, lgpl, library)2013-01-07KetilMalde
biofasta270.0Library for reading fasta sequence files (bioinformatics, gpl, library)2013-01-10DanFornika
biofastq170.0A library for reading FASTQ files (bioinformatics, lgpl, library)2012-10-23KetilMalde
biohazard490.0bioinformatics support library (bioinformatics, bsd3, library)2017-08-28ustenzel
biophd330.0Library for reading phd sequence files (bioinformatics, gpl, library)2015-05-20DanFornika
biopsl230.0Library and executables for working with PSL files (bioinformatics, lgpl, library, program)2012-11-19KetilMalde
biosff320.0Library and executables for working with SFF files (bioinformatics, lgpl, library)2013-09-28KetilMalde
biostockholm380.0Parsing and rendering of Stockholm files (used by Pfam, Rfam and Infernal). (bioinformatics, bsd3, library)2015-07-21FelipeLessa
blastxml220.0Library for reading Blast XML output (bioinformatics, lgpl, library)2014-10-29KetilMalde
blosum260.0BLOSUM generator (bioinformatics, gpl, library, program)2016-11-30GregorySchwartz
clustertools170.0Tools for manipulating sequence clusters (bioinformatics, gpl, program)2011-06-06GwernBranwen, KetilMalde
cmv311.5Detailed visualization of CMs, HMMs and their comparisions (bioinformatics, gpl, library, program)2017-09-26FlorianEggenhofer
convert-annotation190.0Convert the annotation of a gene to another in a delimited file using a variety of different databases. (bioinformatics, gpl, library, program)2017-01-11GregorySchwartz
dephd200.0Analyze quality of nucleotide sequences. (bioinformatics, gpl, program)2011-03-21GwernBranwen, KetilMalde
diversity930.0Quantify the diversity of a population (bioinformatics, gpl, library, program)2017-09-01GregorySchwartz
estreps150.0Repeats from ESTs (bioinformatics, gpl, program)2009-10-07GwernBranwen, KetilMalde
flower390.0Analyze 454 flowgrams (.SFF files) (bioinformatics, gpl, program)2013-09-19KetilMalde
flowsim280.0Simulate 454 pyrosequencing (bioinformatics, gpl, program)2013-11-19KetilMalde
gact110.0General Alignment Clustering Tool (bioinformatics, gpl, program)2012-03-26KetilMalde
hPDB710.0Protein Databank file format library (bioinformatics, bsd3, library)2016-06-05MichalGajda
hPDB-examples420.0Examples for hPDB library (bioinformatics, bsd3, program)2016-06-05MichalGajda
hTalos140.0Parser, print and manipulate structures in PDB file format. (bioinformatics, bsd3, library)2013-11-23MichalGajda
hemokit190.0Haskell port of the Emokit EEG project (benchmark, bioinformatics, library, mit, program)2015-08-19NiklasHambuechen, PatrickChilton
korfu60.0The Korfu ORF Utility (bioinformatics, gpl, program)2010-09-10KetilMalde
memexml50.0Library for reading Meme XML output (bioinformatics, bsd3, library)2015-09-11FlorianEggenhofer
mmtf50.0Macromolecular Transmission Format implementation (bioinformatics, bsd3, library)2017-03-21zmactep
modify-fasta130.0Modify fasta (and CLIP) files in several optional ways (bioinformatics, gpl, library, program)2016-11-13GregorySchwartz
phybin100.0Utility for clustering phylogenetic trees in Newick format based on Robinson-Foulds distance. (bioinformatics, bsd3, library, program)2013-09-20RyanNewton
rank-product100.0Find the rank product of a data set. (bioinformatics, gpl, library)2017-04-11GregorySchwartz
rbr50.0Mask nucleotide (EST) sequences in Fasta format (bioinformatics, gpl, program)2010-09-09GwernBranwen, KetilMalde
samtools260.0Binding to the C samtools library (bioinformatics, library, mit)2016-05-30NicholasIngolia
samtools-conduit190.0Conduit interface to SAM/BAM format files through samtools (bioinformatics, library, mit, program)2014-11-29NicholasIngolia
samtools-enumerator120.0Enumerator interface to SamTools library (bioinformatics, library, mit)2012-01-21NicholasIngolia
samtools-iteratee170.0Iteratee interface to SamTools library (bioinformatics, library, mit)2014-01-24NicholasIngolia
seqloc180.0Handle sequence locations for bioinformatics (bioinformatics, library, mit)2015-01-16NicholasIngolia
seqloc-datafiles130.0Read and write BED and GTF format genome annotations (bioinformatics, library, mit, program)2015-03-20NicholasIngolia
sgrep40.0Sgrep - grep Fasta files for sequences matching a regular expression (bioinformatics, gpl, program)2010-09-13KetilMalde
simseq50.0Simulate sequencing with different models for priming and errors (bioinformatics, gpl, program)2008-03-08GwernBranwen
smiles100.0 (bioinformatics, bsd3, library)2017-08-15fonturacetamum
trimpolya80.0Search for, annotate and trim poly-A tail (bioinformatics, gpl, program)2009-12-15KetilMalde
varan50.0Process mpileup output to identify significant differences (bioinformatics, gpl, program)2014-12-01KetilMalde
vcf72.0A package to parse VCF files inspired in similar python libraries (bioinformatics, library, mit)2017-08-10juanpaucar
xml2x230.0Convert BLAST output in XML format to CSV or HTML (bioinformatics, gpl, program)2009-10-07GwernBranwen, KetilMalde
xsact100.0Cluster EST sequences (bioinformatics, gpl, program)2010-09-09GwernBranwen, KetilMalde