kdrew/msblender repository overview

Docker image of installed MSblender, primarily to be used with nextflow pipeline. Mainly used for legacy and replication purposes.

#kdrew: MSblender code on github: https://github.com/marcottelab/MSblender/tree/consistent_search_params⁠

#kdrew: example commandline, copy mzXML file and combined_contam_rev_file.fasta (ie. proteome fasta with contaminates and reversed sequences) into /test_data on host machine

$ docker run -v /test_data/:/data msblender bash /MSblender/runMS2.sh /data/xl_animalcaps_SEC_Control_20a_20181121.mzXML /data/combined_contam_rev_file.fasta /data/working /data/output /searchgui