Lossless compression of FASTQ sequences.
lfq 0.0.4
Usage: lfq <CMD> [arguments] ..
encode Encode a set of FASTQ sequences to LFQ
decode Decode a LFQ to FASTQ
index Generate an index file for fast seeking of LFQ
view View one or more sequences in a LFQ
Running lfq <CMD> without arguments prints usage information for <CMD>
lfq 0.0.4
Encodes a FASTQ to LFQ format
Usage: lfq encode [options] fastq-file
Positional arguments:
fastq-file Input FASTQ file. Use a dash '-' to read from stdin.
Options:
-o, --output (required) File for LFQ output
-h, --header File for read headers
-q, --qual File for quality sequences
-i, --index File for index output
lfq 0.0.4
Decodes a LFQ file to FASTQ
Usage: lfq decode [options] lfq-file
Positional arguments:
lfq-file Input LFQ file.
Options:
-o, --output File for FASTQ output. Defaults to stdout.
-h, --header File from which to read headers
-q, --qual File from which to read quality sequences
lfq 0.0.4
Builds an index for a LFQ file for fast seeking
Usage: lfq index [options] lfq-file
Positional arguments:
lfq-file Input LFQ file.
Options:
-o, --output (required) File for index output.
lfq 0.0.4
View read(s) in a LFQ file
Usage: build/src/lfq view [options] lfq-file
Positional arguments:
lfq-file Input LFQ file.
Options:
-r, --range (required) Range of reads to extract, in the format
'start:end' which prints reads at indices [start, end).
Provide an integer to view a single read.
-i, --index Index file. Recommended for fast lookup