UMIS

NAME

umis - tools for processing UMI RNA-tag data

SYNOPSIS

umis [OPTIONS] COMMAND [ARGS]...

OPTIONS

--help

Show this message and exit.

Commands:

add_uid

Adds UID:[samplebc cellbc umi] to readname for...

bamtag

Convert a BAM/SAM with fastqtransformed read names to...

cb_filter

Filters reads with non-matching barcodes Expects...

cb_histogram

Counts the number of reads for each cellular barcode...

demultiplex_cells

Demultiplex a fastqtransformed FASTQ file into a...

demultiplex_samples

Demultiplex a fastqtransformed FASTQ file into a...

fastqtransform

Transform input reads to the tagcounts compatible...

fasttagcount

Count up evidence for tagged molecules, this...

kallisto

Convert fastqtransformed file to output format...

mb_filter

Filters umis with non-ACGT bases Expects formatted...

sb_filter

Filters reads with non-matching sample barcodes...

sparse

Convert a CSV file to a sparse matrix with rows and...

subset_bamfile

Subset a SAM/BAM file, keeping only alignments from...

tagcount

Count up evidence for tagged molecules

umi_histogram

Counts the number of reads for each UMI Expects...

version

AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.