update pipeline
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- ConfigFastqScreen.txt 1 addition, 1 deletionConfigFastqScreen.txt
- Snakefile 439 additions, 596 deletionsSnakefile
- config.yaml 16 additions, 0 deletionsconfig.yaml
- configPT.yaml 0 additions, 11 deletionsconfigPT.yaml
- envs/Singularity.R.def 89 additions, 0 deletionsenvs/Singularity.R.def
- envs/Star.yaml 0 additions, 8 deletionsenvs/Star.yaml
- envs/htseq.yaml 1 addition, 1 deletionenvs/htseq.yaml
- envs/quality.yaml 1 addition, 3 deletionsenvs/quality.yaml
- envs/samtools.yaml 1 addition, 1 deletionenvs/samtools.yaml
- envs/stringtie.yaml 1 addition, 1 deletionenvs/stringtie.yaml
- scripts/edger.Rmd 203 additions, 0 deletionsscripts/edger.Rmd
- scripts/write_bamfile_info.py 90 additions, 0 deletionsscripts/write_bamfile_info.py
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