galaxyproject / galaxyproject/brc-analytics

C. auris RNASeq datasets to process

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Description

There are only 4 transcriptome data sets on the fungidb.org jbrowse for the primary C. auris assembly:

Data Set: Experimental evolution of fluconazole resistance in Candida auris
https://fungidb.org/fungidb/app/record/dataset/DS_cd56220e4b
https://www.ncbi.nlm.nih.gov/bioproject/PRJNA563631

Data Set: Fresh whole blood infected with Candida auris
https://fungidb.org/fungidb/app/record/dataset/DS_851a76046c
https://www.ncbi.nlm.nih.gov/bioproject/PRJNA741821

Data Set: Transcriptional profiling of Candida auris B8441 grown on different carbon and nitrogen sources
https://fungidb.org/fungidb/app/record/dataset/DS_caa4eaf6df
https://www.ncbi.nlm.nih.gov/bioproject/PRJNA925797

Data Set: Transcriptomic analysis of different Candida auris clinical isolates
https://fungidb.org/fungidb/app/record/dataset/DS_a111dbd0ae
https://www.ncbi.nlm.nih.gov/bioproject/PRJNA697848 (edited)

Contributor guide

No contributing guide indexed for this repository

Research direction

Start by reviewing the four Fungidb dataset records and their linked NCBI BioProjects to determine what processing is required. Then inspect the repository's relevant entry points; done should mean the C. auris RNASeq datasets are processed and available for the primary assembly, though the issue does not specify files or tests.

Written by the indexing model from the issue text.

Assessment

Domain
bioinformatics
Issue type
Feature
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
25/100

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