Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
hackage.haskell.org "bioinformatics" keyword
simseq 0.0
This is a simulator that can generate simulated sequences -- primarily EST type sequences, but qu...1 version - Latest release: about 16 years ago - 1.19 thousand downloads total - 1 maintainer
estreps 0.3.1
rselect - select a random set of sequences from a FASTA file, optinally with random orientation (...3 versions - Latest release: over 14 years ago - 2.72 thousand downloads total - 2 maintainers
xml2x 0.4.2
xml2x - convert blast output in XML format, either to a (csv) table suitable for e.g. importing i...4 versions - Latest release: over 14 years ago - 3.67 thousand downloads total - 2 maintainers
korfu 0.1.1
3 versions - Latest release: over 14 years ago - 2.43 thousand downloads total - 1 maintainertrimpolya 0
1 version - Latest release: over 14 years ago - 1.17 thousand downloads total - 1 maintainerrbr 0.8.6
RBR is a tool for masking EST sequences. It uses a statistical model to identify suspicious seque...3 versions - Latest release: over 13 years ago - 2.41 thousand downloads total - 2 maintainers
xsact 1.7.3
3 versions - Latest release: over 13 years ago - 2.49 thousand downloads total - 2 maintainerssgrep 0.0
1 version - Latest release: over 13 years ago - 1.06 thousand downloads total - 1 maintainerRNAFoldProgs 0.0.0.3
3 versions - Latest release: over 13 years ago - 2.81 thousand downloads total - 1 maintainerdephd 0.1.6
dephd - A simple tool for base calling and quality appraisal. Reads files in phd-format (phred o...7 versions - Latest release: about 13 years ago - 5.52 thousand downloads total - 2 maintainers
Biobase 0.3.1.1
6 versions - Latest release: about 13 years ago - 6.1 thousand downloads total - 1 maintainerclustertools 0.1.5
This is a bunch of stuff I needed at some for manipulating sequence clusters. See the README for ...4 versions - Latest release: almost 13 years ago - 3.64 thousand downloads total - 2 maintainers
BiobaseMAF 0.5.0.0
1 version - Latest release: almost 13 years ago - 1.5 thousand downloads total - 1 maintainerBiobaseDotP 0.1.0.0
1 version - Latest release: over 12 years ago - 1.49 thousand downloads total - 1 maintainerBiobaseTrainingData 0.1.2.3
5 versions - Latest release: over 12 years ago - 5.06 thousand downloads total - 1 maintainerRNAwolf 0.4.0.0
6 versions - Latest release: over 12 years ago - 5.54 thousand downloads total - 1 maintainersamtools-iteratee 0.2.2
5 versions - Latest release: over 12 years ago - 1 dependent repositories - 3.75 thousand downloads total - 1 maintainersamtools-enumerator 0.1.2
4 versions - Latest release: over 12 years ago - 3.08 thousand downloads total - 1 maintainerBiobaseFR3D 0.2.3.0
5 versions - Latest release: over 12 years ago - 5.04 thousand downloads total - 1 maintainergact 0.2
2 versions - Latest release: about 12 years ago - 1.94 thousand downloads total - 1 maintainerPDBtools 0.0.3
This is a collection of modules for the analysis of protein coordinates. The suite allows efficie...3 versions - Latest release: almost 12 years ago - 1 dependent repositories - 3.13 thousand downloads total - 1 maintainer
bioace 0.0.1
2 versions - Latest release: almost 12 years ago - 133 dependent repositories - 2.58 thousand downloads total - 1 maintainerbioalign 0.0.5
6 versions - Latest release: almost 12 years ago - 133 dependent repositories - 6.67 thousand downloads total - 1 maintainerbiofastq 0.1
1 version - Latest release: over 11 years ago - 134 dependent repositories - 1.8 thousand downloads total - 1 maintainerNussinov78 0.1.0.0
5 versions - Latest release: over 11 years ago - 4.54 thousand downloads total - 1 maintainerMC-Fold-DP 0.1.1.0
3 versions - Latest release: over 11 years ago - 2.87 thousand downloads total - 1 maintainerbiopsl 0.4
4 versions - Latest release: over 11 years ago - 133 dependent repositories - 4.34 thousand downloads total - 1 maintainerCMCompare 0.0.1.5
4 versions - Latest release: over 11 years ago - 4.05 thousand downloads total - 1 maintainerbiocore 0.3.1
4 versions - Latest release: over 11 years ago - 135 dependent repositories - 6.08 thousand downloads total - 1 maintainerbiofasta 0.0.3
3 versions - Latest release: over 11 years ago - 134 dependent repositories - 4.39 thousand downloads total - 1 maintainerBiobaseVienna 0.3.0.0
11 versions - Latest release: about 11 years ago - 1 dependent repositories - 10.5 thousand downloads total - 1 maintainerBiobaseTurner 0.3.1.1
13 versions - Latest release: about 11 years ago - 2 dependent repositories - 12 thousand downloads total - 1 maintaineradp-multi 0.2.3
6 versions - Latest release: almost 11 years ago - 1 dependent repositories - 5.37 thousand downloads total - 1 maintaineradp-multi-monadiccp 0.2.1
3 versions - Latest release: almost 11 years ago - 2.91 thousand downloads total - 1 maintainerbio 0.5.3
This is a collection of data structures and algorithms useful for building bioinformatics-related...16 versions - Latest release: almost 11 years ago - 2 dependent repositories - 14.1 thousand downloads total - 2 maintainers
a50 0.5
a50 - a simple tool for graphing genome coverage and fragmentation. Reads files of contigs, and ...3 versions - Latest release: almost 11 years ago - 3.83 thousand downloads total - 1 maintainer
phybin 0.2.11
This package provides a libary and executable for dealing with Newick tree files. It can do simp...9 versions - Latest release: almost 11 years ago - 1 dependent repositories - 6.75 thousand downloads total - 1 maintainer
flower 0.7.2
13 versions - Latest release: over 10 years ago - 9.56 thousand downloads total - 1 maintainerbiosff 0.3.7
9 versions - Latest release: over 10 years ago - 93 dependent repositories - 8.96 thousand downloads total - 1 maintainerbamstats 0.4
4 versions - Latest release: over 10 years ago - 4.11 thousand downloads total - 1 maintainerflowsim 0.3.5
7 versions - Latest release: over 10 years ago - 5.89 thousand downloads total - 1 maintainerRNAFold 1.99.3.4
RNAfold v2 using the ADPfusion library. The RNAfold algorithm is used to determine how fast we ca...6 versions - Latest release: over 10 years ago - 1 dependent repositories - 6.2 thousand downloads total - 1 maintainer
DnaProteinAlignment 0.0.0.1
1 version - Latest release: over 10 years ago - 1.41 thousand downloads total - 1 maintainerRNAdraw 0.2.0.1
1 version - Latest release: over 10 years ago - 1.46 thousand downloads total - 1 maintainerRNAdesign 0.1.2.2
The RNA sequence design problem asks for a single sequence that readily folds into the (one or mo...5 versions - Latest release: over 10 years ago - 4.47 thousand downloads total - 1 maintainer
Genbank 1.0.3
Haskell cabal Genbank libary contains tools, parser and datastructures for the NCBI (National Cen...4 versions - Latest release: over 9 years ago - 16 dependent repositories - 4.31 thousand downloads total - 1 maintainer
blastxml 0.3.2
4 versions - Latest release: over 9 years ago - 133 dependent repositories - 4.57 thousand downloads total - 1 maintainersamtools 0.2.4
15 versions - Latest release: over 9 years ago - 1 dependent repositories - 11.1 thousand downloads total - 1 maintainervaran 0.5.1
3 versions - Latest release: over 9 years ago - 2.3 thousand downloads total - 1 maintainerseqloc 0.6.1
14 versions - Latest release: over 9 years ago - 133 dependent repositories - 11.1 thousand downloads total - 1 maintainersamtools-conduit 0.1.0.1
3 versions - Latest release: over 9 years ago - 1 dependent repositories - 2.19 thousand downloads total - 1 maintainerseqloc-datafiles 0.4.2
10 versions - Latest release: about 9 years ago - 6.83 thousand downloads total - 1 maintainerBCMtools 0.1.1
2 versions - Latest release: about 9 years ago - 2.02 thousand downloads total - 1 maintainerbiophd 0.0.8
Library for reading phd sequence files9 versions - Latest release: almost 9 years ago - 97 dependent repositories - 7.3 thousand downloads total - 4 stars on GitHub - 1 maintainer
GenussFold 0.0.0.2
generalized Algebraic Dynamic Programming Genus-1 RNA pseudoknot grammars implemented with a mul...2 versions - Latest release: almost 9 years ago - 1 dependent repositories - 1.73 thousand downloads total - 4 stars on GitHub - 1 maintainer
biostockholm 0.3.4
10 versions - Latest release: almost 9 years ago - 7.65 thousand downloads total - 1 maintainerhemokit 0.6.6
This package allows reading raw data from the Emotiv EPOC EEG devices. It is inspired and based ...12 versions - Latest release: almost 9 years ago - 1 dependent repositories - 8.43 thousand downloads total - 31 stars on GitHub - 2 maintainers
memexml 0.0.3
Haskell cabal libary for parsing Meme motif finder xml output3 versions - Latest release: over 8 years ago - 2.62 thousand downloads total - 3 stars on GitHub - 1 maintainer
blosum 0.1.1.4
BLOSUM matrix generator with the addition of any generic characters for special amino acids4 versions - Latest release: over 7 years ago - 16 dependent repositories - 3.21 thousand downloads total - 1 stars on GitHub - 1 maintainer
TaxonomyTools 1.0.1
2 versions - Latest release: over 7 years ago - 2 dependent repositories - 1.76 thousand downloads total - 1 maintainerBiobaseInfernal 0.8.1.0
Provides import and export facilities for Infernal/Rfam data formats. We include Stockholm, CM, v...16 versions - Latest release: about 7 years ago - 1 dependent repositories - 15.8 thousand downloads total - 4 stars on GitHub - 1 maintainer
AlignmentAlgorithms 0.1.0.0
generalized Algebraic Dynamic Programming A selection of (sequence) alignment algorithms. Both t...5 versions - Latest release: about 7 years ago - 1 dependent repositories - 4.52 thousand downloads total - 1 stars on GitHub - 1 maintainer
BioHMM 1.2.0
Libary containing parsing and visualisation functions and datastructures for Hidden Markov Models...20 versions - Latest release: almost 7 years ago - 14.9 thousand downloads total - 1 maintainer
BiobaseNewick 0.0.0.2
This is a simple parser for Newick trees. The parser returns a rose tree. Each node is labelled w...2 versions - Latest release: almost 7 years ago - 9 dependent repositories - 2.17 thousand downloads total - 1 stars on GitHub - 1 maintainer
EntrezHTTP 1.0.4
EntrezHTTP provides functions to query the NCBI entrez REST interface. There are multiple differ...5 versions - Latest release: almost 7 years ago - 13 dependent repositories - 4.29 thousand downloads total - 4 stars on GitHub - 1 maintainer
vcf 0.9.0
1 version - Latest release: almost 7 years ago - 1 dependent repositories - 918 downloads total - 1 maintainersmiles 0.2.0.0
Full support of OpenSMILES and SMARTS specifications for Haskell4 versions - Latest release: almost 7 years ago - 2.72 thousand downloads total - 6 stars on GitHub - 1 maintainer
diversity 0.8.1.0
Calculates the diversity of each position in a fasta file.26 versions - Latest release: over 6 years ago - 2 dependent packages - 18 dependent repositories - 18.3 thousand downloads total - 1 stars on GitHub - 1 maintainer
Gene-CluEDO 0.0.0.2
Gene Cluster Evolution Determined Order Expansion of Gene Clusters and the Shortest Hamiltonian ...2 versions - Latest release: over 6 years ago - 1.8 thousand downloads total - 1 stars on GitHub - 1 maintainer
ViennaRNAParser 1.3.3
Currently contains parsers and datatypes for: RNAalifold, RNAcode, RNAdistance, RNAcofold, RNAfol...15 versions - Latest release: over 6 years ago - 24 dependent repositories - 12.3 thousand downloads total - 1 maintainer
ADPfusionSet 0.0.0.2
generalized Algebraic Dynamic Programming Extensions of ADPfusion for set-(like) data structures.2 versions - Latest release: over 6 years ago - 1 dependent repositories - 2.01 thousand downloads total - 2 stars on GitHub - 1 maintainer
MutationOrder 0.0.1.0
Determine the most likely order in which single nucleotide mutations happened between two RNA seq...3 versions - Latest release: over 6 years ago - 2.46 thousand downloads total - 0 stars on GitHub - 1 maintainer
ViennaRNA-bindings 0.233.2.0
Bindings to the ViennaRNA package, version 2.3.3. Only a partial set of bindings is provided. If...10 versions - Latest release: over 6 years ago - 1 dependent repositories - 9.1 thousand downloads total - 2 stars on GitHub - 1 maintainer
ADPfusionForest 0.0.0.1
ADPfusion for formal languages on tree and forest structures. This library connects @ForestStruct...1 version - Latest release: over 6 years ago - 1 dependent repositories - 1.09 thousand downloads total - 1 stars on GitHub - 1 maintainer
ViennaRNA-extras 0.0.0.1
Extra functionality on top of the ViennaRNA bindings. Please note the special license of the Vien...1 version - Latest release: over 6 years ago - 2 dependent repositories - 1.07 thousand downloads total - 1 stars on GitHub - 1 maintainer
Forestry 0.0.0.1
Wikipedia on forestry: "the science and craft of creating, managing, using, conserving, and repai...1 version - Latest release: over 6 years ago - 1 dependent repositories - 1.02 thousand downloads total - 2 stars on GitHub - 1 maintainer
cmv 1.0.8
cmv is a collection of tools for the visualisation of Hidden Markov Models (HMMV) and RNA-family ...8 versions - Latest release: over 6 years ago - 5.02 thousand downloads total - 1 maintainer
convert-annotation 0.5.1.0
Convert the annotation of a gene to another in a delimited file using a variety of different data...6 versions - Latest release: over 6 years ago - 4 dependent repositories - 3.84 thousand downloads total - 1 stars on GitHub - 1 maintainer
SelectSequencesFromMSA 1.0.5
4 versions - Latest release: about 6 years ago - 2.76 thousand downloads total - 1 maintainermodify-fasta 0.8.3.0
Modify fasta (and CLIP) files in several ways.13 versions - Latest release: about 6 years ago - 17 dependent repositories - 7.61 thousand downloads total - 2 stars on GitHub - 1 maintainer
integreat 0.2.2.1
Integrate difference data sources and optionally perform differential integration.1 version - Latest release: about 6 years ago - 1 dependent repositories - 804 downloads total - 1 stars on GitHub - 1 maintainer
subsample 0.1.0.0
Subsample data from a uniform distribution so two different statuses for the same entity have the...1 version - Latest release: about 6 years ago - 744 downloads total - 0 stars on GitHub - 1 maintainer
normalize 0.3.1.1
normalize4 versions - Latest release: almost 6 years ago - 1 dependent repositories - 1.92 thousand downloads total - 0 stars on GitHub - 1 maintainer
collapse-duplication 0.4.0.1
Process the output of heatitup in order to collapse sequences into clones by similar ITD mutations.1 version - Latest release: over 5 years ago - 1 dependent repositories - 753 downloads total - 0 stars on GitHub - 1 maintainer
rank-product 0.2.2.0
Collects the functions pertaining to finding the rank product of a data set as well as the associ...10 versions - Latest release: over 5 years ago - 10 dependent repositories - 5 thousand downloads total - 0 stars on GitHub - 1 maintainer
classify-frog 0.2.3
4 versions - Latest release: over 5 years ago - 2.02 thousand downloads total - 1 maintainerbiohazard 1.1.1
20 versions - Latest release: over 5 years ago - 6 dependent repositories - 12.2 thousand downloads total - 1 maintainerBiobaseHTTPTools 1.0.0
1 version - Latest release: over 5 years ago - 809 downloads total - 1 maintainerzsyntax 0.2.0.0
An automated theorem prover for Zsyntax, a logical calculus for molecular biology inspired by lin...1 version - Latest release: over 5 years ago - 1 dependent repositories - 510 downloads total - 11 stars on GitHub - 1 maintainer
mmtf 0.1.3.1
Haskell implementation of MMTF biological structure format.6 versions - Latest release: over 5 years ago - 3.2 thousand downloads total - 3 stars on GitHub - 1 maintainer
heatitup 0.5.4.0
Find and annotate ITDs using suffix trees and characterize the exogenous segments within the spac...2 versions - Latest release: almost 5 years ago - 1 dependent repositories - 1.13 thousand downloads total - 2 stars on GitHub - 1 maintainer
modularity 0.2.1.1
Find the modularity of a network.5 versions - Latest release: almost 5 years ago - 1 dependent package - 1 dependent repositories - 2.41 thousand downloads total - 0 stars on GitHub - 1 maintainer
RNAlien 1.7.0
14 versions - Latest release: over 4 years ago - 7 dependent repositories - 9.61 thousand downloads total - 1 maintainerhierarchical-spectral-clustering 0.5.0.1
Hierarchical spectral clustering of a graph.15 versions - Latest release: over 4 years ago - 2 dependent packages - 1 dependent repositories - 5.62 thousand downloads total - 7 stars on GitHub - 1 maintainer
ADPfusion 0.6.0.0
generalized Algebraic Dynamic Programming ADPfusion combines stream-fusion (using the stream int...20 versions - Latest release: over 4 years ago - 8 dependent repositories - 19.3 thousand downloads total - 26 stars on GitHub - 1 maintainer
FormalGrammars 0.4.0.0
generalized Algebraic Dynamic Programming Context-free grammars in formal language theory are se...10 versions - Latest release: over 4 years ago - 4 dependent repositories - 8.49 thousand downloads total - 5 stars on GitHub - 1 maintainer
GrammarProducts 0.2.0.0
generalized Algebraic Dynamic Programming An algebra of linear and context-free grammars. This ...9 versions - Latest release: over 4 years ago - 1 dependent repositories - 7.32 thousand downloads total - 2 stars on GitHub - 1 maintainer
ClustalParser 1.3.0
Currently contains parsers and datatypes for: clustalw2, clustalo, mlocarna, cmalign Clustal too...14 versions - Latest release: over 4 years ago - 23 dependent repositories - 11.2 thousand downloads total - 1 maintainer
BiobaseHTTP 1.2.0
BiobaseHTTP provides functions to interface the Bioinformatics REST services - Entrez Ensembl NC...2 versions - Latest release: over 4 years ago - 1 dependent repositories - 1.21 thousand downloads total - 4 stars on GitHub - 1 maintainer
StockholmAlignment 1.3.0
Libary containing parsing and visualisation functions and datastructures for Stockholm aligmnent ...10 versions - Latest release: over 4 years ago - 2 dependent repositories - 6.86 thousand downloads total - 1 maintainer
Related Keywords
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program
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gpl
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abif
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fastq
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next-generation-sequencing
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ngs
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samtools
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science
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bioinformatics-algorithms
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single-cell
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mmtf
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domain-specific-language
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