filter_feature_table.R reads in tab-delimited files with samples as columns and features as rows. It assumes that the first N columns contain the feature information (N can be specified with -f). Features can be filtered either by the proportion of samples that have non-zero observations (--prop) and by and matching strings to the feature description columns (--exclude).
For instance, users might want to specify --exclude "Human Diseases" to screen out all KEGG Pathways within that hierarchy.
mlangill
commented
6 years ago
filter_feature_table.Rreads in tab-delimited files with samples as columns and features as rows. It assumes that the first N columns contain the feature information (N can be specified with-f). Features can be filtered either by the proportion of samples that have non-zero observations (--prop) and by and matching strings to the feature description columns (--exclude).For instance, users might want to specify
--exclude "Human Diseases"to screen out all KEGG Pathways within that hierarchy.