NAME
SURVIVOR - <short_description>SYNOPSIS
SURVIVOR <command> [options]DESCRIPTION
Program: SURVIVOR (Tools for Structural Variations in the VCF format) Version: 1.0.6 Commands: -- Simulation/ Evaluation- simSV
- Simulates SVs and SNPs on a reference genome.
- scanreads
- Obtain error profiles form mapped reads for simulation.
- simreads
- Simulates long reads (Pacio or ONT).
- eval
- Evaluates a VCF file after SV calling over simulated data.
- merge
- Compare or merge VCF files to generate a consensus or multi sample VCF files.
- genComp Generates a pairwise comparison matrix based on any multi sample VCF file filter Filter a vcf file based on size and/or regions to ignore stats Report multiple stats over a VCF file compMUMMer Annotates a VCF file with the breakpoints found with MUMMer (Show-diff).
- bincov
- Bins coverage vector to a bed file to filter SVs in low MQ regions
- vcftobed
- Converts a VCF file to a bed file
- bedtovcf
- Converts a bed file to a VCF file
- smaptovcf
- Converts the smap file to a VCF file (beta version)
- bedpetovcf
- Converts a bedpe file to a VCF file (beta version)
- hapcuttovcf
- Converts the Hapcut2 final file to a VCF file using the original SNP file provided to Hapcut2
- convertAssemblytics
- Converts Assemblytics to a VCF file
AUTHOR
This manpage was written by Nilesh Patra for the Debian distribution and
can be used for any other usage of the program.
| September 2020 | SURVIVOR 1.0.6 |