Index A | C | E | F | G | I | M | O | P | R | S | T | U A add_exon() (tidesurf.transcript.Transcript method) AMBIGUOUS (tidesurf.enums.SpliceType attribute) AMBIGUOUS_READ (tidesurf.enums.ReadType attribute) antisense() (in module tidesurf.enums) attributes (tidesurf.transcript.GTFLine attribute) C chromosome (tidesurf.transcript.Exon attribute) (tidesurf.transcript.GenomicFeature attribute) (tidesurf.transcript.GTFLine attribute) (tidesurf.transcript.Intron attribute) (tidesurf.transcript.Transcript attribute) count() (tidesurf.counter.UMICounter method) E end (tidesurf.transcript.Exon attribute) (tidesurf.transcript.GenomicFeature attribute) (tidesurf.transcript.GTFLine attribute) (tidesurf.transcript.Intron attribute) (tidesurf.transcript.Transcript attribute) Exon (class in tidesurf.transcript) EXON (tidesurf.enums.ReadType attribute) EXON_EXON (tidesurf.enums.ReadType attribute) exon_id (tidesurf.transcript.Exon attribute) exon_number (tidesurf.transcript.Exon attribute) F feature (tidesurf.transcript.GTFLine attribute) frame (tidesurf.transcript.GTFLine attribute) G gene_id (tidesurf.transcript.Exon attribute) (tidesurf.transcript.GenomicFeature attribute) (tidesurf.transcript.Intron attribute) (tidesurf.transcript.Transcript attribute) gene_name (tidesurf.transcript.Exon attribute) (tidesurf.transcript.GenomicFeature attribute) (tidesurf.transcript.Intron attribute) (tidesurf.transcript.Transcript attribute) GenomicFeature (class in tidesurf.transcript) get_overlapping_transcripts() (tidesurf.transcript.TranscriptIndex method) get_transcript() (tidesurf.transcript.TranscriptIndex method) GTFLine (class in tidesurf.transcript) I Intron (class in tidesurf.transcript) INTRON (tidesurf.enums.ReadType attribute) M MIN_INTRON_OVERLAP (tidesurf.counter.UMICounter attribute) MINUS (tidesurf.enums.Strand attribute) module tidesurf tidesurf.counter tidesurf.enums tidesurf.transcript multi_mapped_reads (tidesurf.counter.UMICounter attribute) O orientation (tidesurf.counter.UMICounter attribute) overlaps() (tidesurf.transcript.Exon method) (tidesurf.transcript.GenomicFeature method) (tidesurf.transcript.Intron method) (tidesurf.transcript.Transcript method) P PLUS (tidesurf.enums.Strand attribute) R read_gtf() (tidesurf.transcript.TranscriptIndex method) ReadType (class in tidesurf.enums) regions (tidesurf.transcript.Transcript attribute) S score (tidesurf.transcript.GTFLine attribute) sort_regions() (tidesurf.transcript.Transcript method) source (tidesurf.transcript.GTFLine attribute) SPLICED (tidesurf.enums.SpliceType attribute) SpliceType (class in tidesurf.enums) start (tidesurf.transcript.Exon attribute) (tidesurf.transcript.GenomicFeature attribute) (tidesurf.transcript.GTFLine attribute) (tidesurf.transcript.Intron attribute) (tidesurf.transcript.Transcript attribute) Strand (class in tidesurf.enums) strand (tidesurf.transcript.Exon attribute) (tidesurf.transcript.GenomicFeature attribute) (tidesurf.transcript.GTFLine attribute) (tidesurf.transcript.Intron attribute) (tidesurf.transcript.Transcript attribute) T tidesurf module tidesurf.counter module tidesurf.enums module tidesurf.transcript module Transcript (class in tidesurf.transcript) transcript_id (tidesurf.transcript.Exon attribute) (tidesurf.transcript.GenomicFeature attribute) (tidesurf.transcript.Intron attribute) (tidesurf.transcript.Transcript attribute) transcript_index (tidesurf.counter.UMICounter attribute) transcript_name (tidesurf.transcript.Exon attribute) (tidesurf.transcript.GenomicFeature attribute) (tidesurf.transcript.Intron attribute) (tidesurf.transcript.Transcript attribute) TranscriptIndex (class in tidesurf.transcript) transcripts (tidesurf.transcript.TranscriptIndex attribute) transcripts_by_region (tidesurf.transcript.TranscriptIndex attribute) U UMICounter (class in tidesurf.counter) UNSPLICED (tidesurf.enums.SpliceType attribute)
