Taxonomy alternatives and similar packages

Based on the "Bioinformatics" category.
Alternatively, view Taxonomy alternatives based on common mentions on social networks and blogs.

hemokit

8.4 0.0 Taxonomy VS hemokit

Haskell library for the Emotiv EEG, inspired by the Emokit code
cobot

7.7 0.0 Taxonomy VS cobot

Computational biology toolkit to collaborate with researchers in constructive protein engineering

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cobot-io

7.3 0.0 Taxonomy VS cobot-io

Biological data file formats and IO
hPDB

7.2 0.0 Taxonomy VS hPDB

PDB parser in Haskell
samtools

6.8 0.0 Taxonomy VS samtools

[Moved to: https://github.com/ingolia/SamTools]
RNAlien

6.6 0.0 Taxonomy VS RNAlien

RNAlien - unsupervised RNA family model construction
Genbank

5.6 0.0 Taxonomy VS Genbank

Genbank format tools and parser
BlastHTTP

5.4 0.0 Taxonomy VS BlastHTTP

Haskell cabal libary for submission and result retrieval from the NCBI Blast REST webservice
bioinformatics-toolkit

5.4 0.0 Taxonomy VS bioinformatics-toolkit

A collection of bioinformatics algorithms
cmv

5.3 0.0 Taxonomy VS cmv

Visualize HMMs, CMs and their comparisons
phybin

5.2 0.0 Taxonomy VS phybin

Binning (Newick) Phylogenetic Trees by Topology
FormalGrammars

5.1 0.0 Taxonomy VS FormalGrammars

Context-free and linear grammars in Haskell (parsing, pretty-printing, embedded DSL)
cobot-tools

5.0 3.6 Taxonomy VS cobot-tools

Biological data file formats and IO
vcf

5.0 0.0 Taxonomy VS vcf

Haskell library to handle VCF (Variant Call Format) files
EntrezHTTP

4.8 0.0 Taxonomy VS EntrezHTTP

Haskell cabal libary for submission and result retrieval from the NCBI Entrez REST webservice
TaxonomyTools

4.3 0.0 Taxonomy VS TaxonomyTools

Tools to process and visualize NCBI taxonomy data
SelectSequencesFromMSA

4.0 0.0 Taxonomy VS SelectSequencesFromMSA

Tool to select representative sequences from a multiple sequence alignment
ViennaRNAParser

3.6 0.0 Taxonomy VS ViennaRNAParser

Libary for parsing ViennaRNA package output
ClustalParser

3.1 0.0 Taxonomy VS ClustalParser

Parse output of Clustal tools
BioHMM

2.9 0.0 Taxonomy VS BioHMM

Libary containing parsing and visualisation functions and datastructures for Hidden Markov Models in HMMER3 format.
memexml

2.9 0.0 Taxonomy VS memexml

Haskell cabal libary for parsing Meme motif finder xml output
StockholmAlignment

2.8 0.0 Taxonomy VS StockholmAlignment

Libary containing parsing and visualisation functions and datastructures for Stockholm aligmnent format.
seqloc

2.4 0.0 Taxonomy VS seqloc

Bio.SeqLoc
Forestry

2.4 0.0 Taxonomy VS Forestry

Science and craft of forests
Gene-CluEDO

2.2 0.0 Taxonomy VS Gene-CluEDO

Gene Cluster Evolution Determined Order
ADPfusionForest

2.1 0.0 Taxonomy VS ADPfusionForest

Dynamic programming on tree and forest structures
MutationOrder

1.8 0.0 Taxonomy VS MutationOrder

most likely order of mutation events in RNA
uniprot-kb

1.5 0.0 Taxonomy VS uniprot-kb

UniProt-KB format parser
rank-product

1.1 0.0 Taxonomy VS rank-product

Collects the functions pertaining to finding the rank product of a data set as well as the associated p-value.
mmtf

0.6 0.0 Taxonomy VS mmtf

MMTF for Haskell
bio-sequence

- - Taxonomy VS bio-sequence

Initial project template from stack

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README

Taxonomy

Haskell cabal Taxonomy libary contains tools, parsers, datastructures and visualisation for the NCBI (National Center for Biotechnology Information) Taxonomy datasources.

It can utilize information from the Entrez REST interface (via EntrezHTTP, as well as from the files of the Taxonomy database dump.

Input data is parsed into a FGL based datastructure, which enables a wealth of processing steps like node distances, retrieval of parent nodes or extraction of subtrees.

Trees can be visualised via dot-format (graphviz) or via json-format (d3js).