API reference

This page gives an overview of all public precellar objects, functions and methods.

SeqSpec

SeqSpec(path)

A SeqSpec object.

Core functions

make_genome_index(fasta, genome_prefix)	Create a genome index from a fasta file.
align(seqspec, genome_index, *, modality[, ...])	Align fastq reads to the reference genome and generate unique fragments.
make_fragment(seqspec, genome_index, *, modality)

Utilities

utils.strip_barcode_from_fastq(in_fq, ...[, ...])

Remove barcode from the read names of fastq records.