Assembly polisher using short (and long) reads
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
sr_bam:file
Aligned short-read BAM/SAM file. Must have CIGAR information.
*.{bam,sam}
meta2:map
reads:file
Short reads file(s). In fastq or fasta, compressed or uncompressed
draft:file
Input (fasta) file containing draft contig assembly
genome_size:string
Estimated size of the genome. Number or nts or use suffixes k/m/g, e.g. 5m, 3.2g
reads_coverage:integer
Appprimate depth of coverage of short reads.
fasta
*.fasta:file
Polished assembly fasta file
*.fasta
versions
versions.yml:file
File containing software versions
versions.yml
Super Fast and Accurate Polisher for Long Read Genome Assemblies.
