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hi, there is a '-t' arg in sammtools to Sort by value of TAG. but i can't find alternative arg in sambamba .
I've seen some closed issue #309 in 2017 also Mentioned. but there is no solution .
How can i sort by value of tag.
The text was updated successfully, but these errors were encountered:
sambamba 0.8.2
by Artem Tarasov and Pjotr Prins (C) 2012-2021
LDC 1.27.1 / DMD v2.097.2 / LLVM11.0.0 / bootstrap LDC - the LLVM D compiler (1.27.1)
Usage: sambamba-sort [options] <input.bam>
Options: -m, --memory-limit=LIMIT
approximate total memory limit for all threads (by default 2GB)
--tmpdir=TMPDIR
directory for storing intermediate files; default is system directory for temporary files
-o, --out=OUTPUTFILE
output file name; if not provided, the result is written to a file with .sorted.bam extension
-n, --sort-by-name
sort by read name instead of coordinate (lexicographical order)
--sort-picard
sort by query name like in picard
-N, --natural-sort
sort by read name instead of coordinate (so-called 'natural' sort as in samtools)
-M, --match-mates
pull mates of the same alignment together when sorting by read name
-l, --compression-level=COMPRESSION_LEVEL
level of compression for sorted BAM, from 0 to 9
-u, --uncompressed-chunks
write sorted chunks as uncompressed BAM (default is writing with compression level 1), that might be faster in some cases but uses more disk space
-p, --show-progress
show progressbar in STDERR
-t, --nthreads=NTHREADS
use specified number of threads
-F, --filter=FILTER
keep only reads that satisfy FILTER
hi, there is a '-t' arg in sammtools to Sort by value of TAG. but i can't find alternative arg in sambamba .
I've seen some closed issue #309 in 2017 also Mentioned. but there is no solution .
How can i sort by value of tag.
The text was updated successfully, but these errors were encountered: