https://github.com/mikelove/csama2016data
https://github.com/mikelove/csama2016data
Last synced: 9 months ago
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- Host: GitHub
- URL: https://github.com/mikelove/csama2016data
- Owner: mikelove
- Created: 2016-06-20T13:04:47.000Z (over 9 years ago)
- Default Branch: master
- Last Pushed: 2016-06-20T20:45:14.000Z (over 9 years ago)
- Last Synced: 2025-01-22T07:51:17.658Z (11 months ago)
- Size: 7.74 MB
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
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Metadata Files:
- Readme: README.md
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README
# CSAMA2016data
Additional datasets for CSAMA2016
## Steps taken to prepare data:
### Schurch et al, 2016: Highly replicated yeast RNA-seq
* Went to https://github.com/bartongroup/profDGE48
* From `Preproccesed_data` dir, downloaded `Snf2_countdata.tar.gz`
and `WT_countdata.tar.gz`.
* Use `tar -xvf` to decompress and extract files and move them
into dirs called `Snf2` and `WT` in `inst/extdata`
* Download `exclude.lst` from `Bad_replicate_identification` dir.
* Move this to `inst/extdata/bad_replicate` dir.
### SECQ data subset
* Install Bioconductor package `seqc`.
* `agr <- ILM_refseq_gene_AGR`
* `save(agr, file="agr.rda", compress="xz")`