Difference between revisions of "PredictStartSites (analysis)"

Revision as of 12:21, 25 August 2015

Predict translation start sites

SVM model – Trained SVM model from BuildProfileModel analysis
BAM files – BAM files with genomic alignments
Annotation source – Source of gene annotation
Genome sequnce – Collection of chromosomal sequences
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
Summary table – Table with predicted translation start sites
Output track – Track with prediced translation start sites