The Ramírez Lab



University of California - Davis

Scripts and Pipelines

GCtoMAT.zip

GCtoMAT is a collection of utility shell scripts to harvest retention times and peaks from multiple GC-MS output data files (Agilent) to build matrices for statistical analysis. User manual, sample files, and several scripts (for different file formats) are provided.



extract

extract is a simple PERL script that extracts unmapped short reads (e.g Illumina) from a SAM file and outputs them back into FASTq format