Tutorials
This page contains a few tutorials to help you familiarize yourself with HTSeq
, including htseq-count
and its barcode sibiling htseq-count-barcodes
.
Parsers
Tutorial: Using Fasta/Fastq parsers: Simple tutorial on hadling fasta and fastq files with
HTSeq
.Tutorial: Using the SAM/BAM/CRAM parsers: Simple tutorial on handling SAM/BAM/CRAM files.
Tutorial: StepVector versus StretchVector: Explanation of the different data structures used to store sparse genomic data.
Workflows
Tutorial: Transcription start sites (TSS): TSS example for the
HTSeq
APITutorial: High C data exploration: Chromatin conformation example for the
HTSeq
API
Scripts
Opening the black box of htseq-count: Explanation of the inner workings of
htseq-count
Quantifying exon-level expression with htseq-count: Calling
htseq-count
at the exon level.