/mips

Scripts/tools for working with mip experiments.

Primary LanguagePythonMIT LicenseMIT

mips

Scripts/tools for working with mip experiments.

Usage

Per sample

python mips_trim_dedup.py -d design.txt -r1 [R1.fastq [R1.fastq ...]] -r2 [R2.fastq [R2.fastq ...]] -l UUID_LENGTH -ur {R1,R2}

Qsub run to UMCU hpc

python qsub_*.py  /path/to/design.txt uuid_length uuid_read(R1,R2) /path/to/raw_data/sequencer/run/Data/Intensities/BaseCalls /path/to/output/folder