ezez_vx1.pl1
Single-pass nucleotide sequencing read accuracy improvement
Usage
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]
Overview
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.
-nowyyyymmdd_hhmmss-
Use an existing result_yyyymmdd_hhmmss directory from a previous run, detect unfinished jobs, and restart at the appropriate stage.