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Title: GitHub - algorithmace24/goatools: Python library to handle Gene Ontology (GO) terms · GitHub

Open Graph Title: GitHub - algorithmace24/goatools: Python library to handle Gene Ontology (GO) terms

X Title: GitHub - algorithmace24/goatools: Python library to handle Gene Ontology (GO) terms

Description: Python library to handle Gene Ontology (GO) terms. Contribute to algorithmace24/goatools development by creating an account on GitHub.

Open Graph Description: Python library to handle Gene Ontology (GO) terms. Contribute to algorithmace24/goatools development by creating an account on GitHub.

X Description: Python library to handle Gene Ontology (GO) terms. Contribute to algorithmace24/goatools development by creating an account on GitHub.

Mail addresses
tanghaibao@gmail.com

Opengraph URL: https://github.com/algorithmace24/goatools

X: @github

direct link

Domain: github.com

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setup.py	https://github.com/algorithmace24/goatools/blob/main/setup.py
README	https://github.com/algorithmace24/goatools
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	https://github.com/algorithmace24/goatools#tools-for-gene-ontology
	https://www.nature.com/articles/s41598-018-28948-z
	https://pypi.python.org/pypi/goatools
	http://bioconda.github.io/recipes/goatools/README.html?highlight=goatools
	https://github.com/tanghaibao/goatools/actions
	https://pepy.tech/project/goatools
tanghaibao	http://github.com/tanghaibao
dvklopfenstein	https://github.com/dvklopfenstein
brentp	http://github.com/brentp
fidelram	https://github.com/fidelram
aurelien-naldi	http://github.com/aurelien-naldi
patflick	http://github.com/patflick
yunesj	http://github.com/yunesj
bicycle1885	http://github.com/bicycle1885
cmungall	https://github.com/cmungall
stuppie	https://github.com/stuppie
deto	https://github.com/deto
olgabot	https://github.com/olgabot
	https://github.com/algorithmace24/goatools#description
statsmodels	http://www.statsmodels.org/stable/index.html
Gene Ontology website	http://geneontology.org
GO Association files	http://geneontology.org/page/go-annotation-file-formats
GO Annotation File	http://geneontology.org/page/go-annotation-file-gaf-format-21
Gene Product Association Data	https://geneontology.github.io/docs/gene-product-association-data-gpad-format/
example	https://raw.githubusercontent.com/tanghaibao/goatools/main/data/association
Print decendants count and/or information content	https://github.com/algorithmace24/goatools/blob/main/notebooks/dcnt_and_tinfo.ipynb
Get parents or ancestors for a GO term with or without optional relationships	https://github.com/algorithmace24/goatools/blob/main/notebooks/parents_and_ancestors.ipynb
Print details about a GO ID's parents	https://github.com/algorithmace24/goatools/blob/main/notebooks/parent_go_terms.ipynb
Plot GO hierarchies	https://github.com/tanghaibao/goatools#plot-go-lineage
Write GO hierarchies to an ASCII text file	https://github.com/tanghaibao/goatools#write-go-hierarchy
	https://github.com/algorithmace24/goatools#to-cite
GOATOOLS: A Python library for Gene Ontology analyses	https://www.nature.com/articles/s41598-018-28948-z
manuscript	https://www.nature.com/articles/s41598-018-28948-z
two	https://github.com/tanghaibao/goatools/issues/162
Larger study sizes result in higher GOEA sensitivity	https://github.com/dvklopfenstein/goatools_simulation#manuscript-figures
here	https://github.com/dvklopfenstein/goatools_simulation
	https://github.com/algorithmace24/goatools#installation
GO	http://geneontology.org/docs/download-ontology
GO Slim	http://geneontology.org/docs/go-subset-guide/
PyPI	https://pypi.org/project/goatools/
	https://github.com/algorithmace24/goatools#pypi
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	https://github.com/algorithmace24/goatools#bioconda
	https://github.com/algorithmace24/goatools#dependencies
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pygraphviz	http://networkx.lanl.gov/pygraphviz/
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	https://github.com/algorithmace24/goatools#cookbook
	https://github.com/algorithmace24/goatools#find-go-enrichment-of-genes-under-study
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	https://github.com/algorithmace24/goatools#map-go-terms-to-goslim-terms
map2slim	http://search.cpan.org/~cmungall/go-perl/scripts/map2slim
	https://github.com/algorithmace24/goatools#technical-notes
	https://github.com/algorithmace24/goatools#available-statistical-tests-for-calculating-uncorrected-p-values
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goea_nbt3102	https://github.com/algorithmace24/goatools/blob/main/notebooks/goea_nbt3102.ipynb
human phenotype ontologies	https://github.com/algorithmace24/goatools/blob/main/notebooks/Enrichment_analyses_human_phenotype_ontology.ipynb
	https://github.com/algorithmace24/goatools#show-many-study-genes-are-associated-with-rna-translation-mitochondria-and-ribosomal
goea_nbt3102_group_results	https://github.com/algorithmace24/goatools/blob/main/notebooks/goea_nbt3102_group_results.ipynb
	https://github.com/algorithmace24/goatools#report-level-and-depth-counts-of-a-set-of-go-terms
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	https://github.com/algorithmace24/goatools#find-all-human-protein-coding-genes-associated-with-cell-cycle
cell_cycle	https://github.com/algorithmace24/goatools/blob/main/notebooks/cell_cycle.ipynb
	https://github.com/algorithmace24/goatools#calculate-annotation-coverage-of-go-terms-on-various-species
annotation_coverage	https://github.com/algorithmace24/goatools/blob/main/notebooks/annotation_coverage.ipynb
	https://github.com/algorithmace24/goatools#determine-the-semantic-similarities-between-go-terms
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godag_obsolete_terms	https://github.com/algorithmace24/goatools/blob/main/notebooks/godag_obsolete_terms.ipynb
	https://github.com/algorithmace24/goatools#want-to-help
documentation	http://goatools.readthedocs.io/en/latest/
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