资 源 简 介
To identify the mutation that causes change in phenotype for C. elegans, we have developed two PERL scripts (Step A and Step C).
Pre-requisite: Pre-installed BFAST, SAMTOOLS, and ANNOVAR software programs and the paths
Input: Fastq file(s) for F2s that is homozygous for the mutation.
USAGE:
Step A: Alignment, SNP calling, annotation, adding SNP count, and selecting homozygous mutants (based on MutFinder_v_0.1.0.pl)
Download PhenoMut_Step_A_v_0.1.0.pl and postprocessing_v2.pl
Type "perl PhenoMut_Step_A_v_0.1.0.pl"
(Answer questions)
Type "source PhenoMut_Step_A_v_0.1.0.sh"
Step B: Manually finding the interval of interest
Draw Hawaiian SNP percentage (Y-axis) as a function of chromosome position (X-axis) for each chromosome using Microsoft Excel or other software (hawaiian_SNP_I.txt, hawaiian_SNP_II.txt, etc.)
De
