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SURANKCO-SCORE(1) | User Commands | SURANKCO-SCORE(1) |
NAME¶
surankco-score - alignment of contigs and reference genomes and score calculationSYNOPSIS¶
surankco-score [ options]DESCRIPTION¶
Alignment of contigs (FASTA format) and reference genomes (FASTA format) and score calculationOPTIONS¶
-a ASSEMBLIES,
--assemblies=ASSEMBLIES
- Indicate a list of assembly files (comma separated), correct suffixes are mandatory (default "*.contigs.fasta")
-d DIRECTORY, --directory=DIRECTORY
- Indicate a directory containing assembly files with indicated format (e.g. "*.contigs.fasta")
-f ASSEMBLY.SUFFIX,
--assembly.suffix=ASSEMBLY.SUFFIX
- Indicate assembly format/suffix, default="contigs.fasta"
-r REFERENCE.SUFFIX,
--reference.suffix=REFERENCE.SUFFIX
- Indicate the reference format/suffix, default="ref.fasta"
-p PDF.HISTOGRAMS,
--pdf.histograms=PDF.HISTOGRAMS
- Indicate a name for the score histogram pdf (default = "surankco_score_histograms.pdf")
-m MEMORY, --memory=MEMORY
- Indicate the maximum memory usage (in Gb) of Javas virtual machine (default: 32). Try to increase if big data sets report heap space problems.
-h, --help
- Show this help message and exit
AUTHOR¶
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.March 2016 | surankco-score 0.0.r5 |