NAME¶
SPRAI - single-pass nucleotide sequencing read accuracy improvement
SYNOPSIS¶
ezez_vx1 ec.spec {
asm.spec |
-ec_only}
[
options]
ezez4qsub_vx1 ec.spec {
asm.spec |
-ec_only}
[
options]
ezez4makefile_v4.pl ec.spec [
asm.spec] && make
-jnproc [
ec_only]
DESCRIPTION¶
Sprai is a tool to correct sequencing errors in single-pass reads for de novo
assembly. It is originally designed for correcting sequencing errors in
single-molecule DNA sequencing reads, especially in Continuous Long Reads
(CLRs) generated by PacBio RS sequencers. The goal of Sprai is not maximizing
the accuracy of error-corrected reads. Instead, Sprai aims at maximizing the
continuity (i.e., N50 contig length) of assembled contigs after error
correction.
OPTIONS¶
- -n
- Show parameters in ec.spec and exit.
- -ec_only
- Perform error correction only. With this option, asm.spec does not
need to be passed in, as assembly is not performed.
- -now yyyymmdd_hhmmss
- Use an existing result_yyyymmdd_hhmmss directory from a previous
run, detect unfinished jobs, and restart at the appropriate stage.
SEE ALSO¶
bash5tools(1)
This program is part of sprai. See the sprai package documentation in
/usr/share/doc/sprai, especially the example ec and pbasm spec files in
/usr/share/doc/sprai/examples