feather_creator

Allows creation of .feather file to use in the pyscenic pipeline from motifs and gene sequences.

Dependencies

pip install numpy version 1.19.5
pip install biopython version 1.73
pip install pyarrow version 0.16.0
pip install pandas
pip install tqdm

using pip environment

python3 -m venv feather_creator_env
source feather_creator_env/bin/activate
python3 -m pip install -r requirements.txt

Installation:

TODO : ajouter sur pypi pip install feather_creator

Tutorials:

Material

This module relies on the iRegulon dataset, which has also been used for i-cistarget.

http://iregulon.aertslab.org/collections.html#motifcolldownload

Direct download link for the motif collection:

https://resources.aertslab.org/papers/iregulon/motifColl-10k-all-public.tar.gz

(Janky and Verfaillie et al., PLoS Comp Biol 2014)

Necessary motif-TF association file:

https://resources.aertslab.org/cistarget/motif2tf/

Metadata

Release files for feather-creator 0.0.3

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Source distribution for feather-creator 0.0.3
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feather_creator-0.0.3.tar.gz	6.4 kB	Apr 11, 2022	Without provenance	Details for feather_creator-0.0.3.tar.gz

Built distribution (wheel)

Table of built distributions (wheels) for feather-creator 0.0.3
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feather_creator-0.0.3-py3-none-any.whl 8.5 kB Apr 11, 2022 Without provenance	Python 3	none	any	Details for feather_creator-0.0.3-py3-none-any.whl

Total release size: 15.0 kB

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Uploaded via	`twine/3.2.0 pkginfo/1.5.0.1 requests/2.22.0 setuptools/45.2.0.post20200210 requests-toolbelt/0.9.1 tqdm/4.42.1 CPython/3.7.6`

Release files / feather_creator-0.0.3-py3-none-any.whl

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SHA-256 checksum How to use checksums	`a1d20822c07708b823585acfd2eadb04ac604b3ce4ef1c4d686810f378dc742f`
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Uploaded via	`twine/3.2.0 pkginfo/1.5.0.1 requests/2.22.0 setuptools/45.2.0.post20200210 requests-toolbelt/0.9.1 tqdm/4.42.1 CPython/3.7.6`

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0.0.3 This release

Apr 11, 2022 2 release files No provenance

0.0.2