umis1
Tools for processing umi rna-tag data
Usage
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 |
Releases
Unchanged in 2 releases since Debian 11 (Bullseye).