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Metadata retrieval from sequence databases with ffq

Gálvez-Merchán, Ángel and Min, Kyung Hoi (Joseph) and Pachter, Lior and Booeshaghi, A. Sina (2022) Metadata retrieval from sequence databases with ffq. . (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20220602-62681600

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Abstract

We present a command-line tool, called ffq, for querying user-generated data and metadata from sequence databases. The code can be found here: https://github.com/pachterlab/ffq.


Item Type:Report or Paper (Discussion Paper)
Related URLs:
URLURL TypeDescription
https://doi.org/10.1101/2022.05.18.492548DOIDiscussion Paper
https://github.com/pachterlab/ffqRelated ItemCode
ORCID:
AuthorORCID
Gálvez-Merchán, Ángel0000-0001-7420-8697
Min, Kyung Hoi (Joseph)0000-0003-0894-4017
Pachter, Lior0000-0002-9164-6231
Booeshaghi, A. Sina0000-0002-6442-4502
Additional Information:The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license. Version 1 - May 19, 2022; Version 2 - May 26, 2022. This work was motivated by the need to obtain metadata for (Booeshaghi and Pachter, 2020). We thank Ali Mortazavi for his suggestion to include ffq querying of the ENCODE database. This work was funded in part by NIH U19MH114830. The authors have declared no competing interest.
Funders:
Funding AgencyGrant Number
NIHU19MH114830
DOI:10.1101/2022.05.18.492548
Record Number:CaltechAUTHORS:20220602-62681600
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20220602-62681600
Official Citation:Metadata retrieval from sequence databases with ffq. Ángel Gálvez-Merchán, Kyung Hoi (Joseph) Min, Lior Pachter, A. Sina Booeshaghi. bioRxiv 2022.05.18.492548; doi: https://doi.org/10.1101/2022.05.18.492548
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:115010
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:02 Jun 2022 23:12
Last Modified:28 Jun 2022 18:06

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