Difference between revisions of "BuildProfileModel (analysis)"

Revision as of 12:21, 25 August 2015

Build model of translation initiation footrpint profile

BAM files – BAM files with genomic alignments
Annotation source – Source of gene annotation
Transcripts annotation track – Track with transcripts annotation in BED format
Ensembl – Ensembl database version
Transcript subset – Subset of transcripts used in this analysis
Transcript overhangs – Transcript overhangs
Strand specific – In strand specific protocol reads can come only from positive strand of transcript
Ribosome A-site offset table – Table with 2 columns: 'Length' and 'Offset'
Min footprints – Minimal number of footprints in scoring window
Min A-site footprints – Minimal number of footprints in ribosome A-site
Window overhangs – Minimal distance between scoring window bounds and transcript bounds, -1 for disabling
Learning fraction – Fraction of transcripts used for training SVM model
Random seed – Random seed for random number generator
SVM model – Resulting SVM model
Confusion matrix – Resulting confusion matrix