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bsa analysis

A typical flow of bsa analysis with reference is shown in the figure below

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bsa pipeline

Two way to run:

ngspipedb runpipe ngspipe-bsa-medicago -n ngspipe-bsa --resultdirname result -d ../test_pipeline --genomeFasta ../testdata_ngspipe-rnaseq-basic/genome/chr19.fa --genomeAnno ../testdata_ngspipe-rnaseq-basic/genome/GRCm38.83.chr19.gtf --samplefile ../testdata_ngspipe-rnaseq-basic/rawdata/sample.csv --rawreadsdir ../testdata_ngspipe-rnaseq-basic/rawdata --snaketype p --readsprefix _R{}.fq.gz -j 1