Results for "vcf"
Bio-Scripts
...ocessGermlineCNVCalls Create a VCF given the output of GermlineC...fingerprint from the supplied input (SAM/BAM or VCF) file and compares it to the...Creates an index for a feature file, e.g. VCF or BED file. ParallelCop...2067 days ago
- library(vcfR) # Input the files. vcf
2052 days ago
- ...1.9/htslib/thread_pool.h htslib-1.9/htslib/vcf.h htslib-1.9/htslib/vcf_sweep.h htslib-1.9/htslib/vc...ol_internal.h htslib-1.9/vcf.5 htslib-1.9/vcf.c htslib-1.9/vcf_sweep.c ht....o test/test-vcf-sweep.c gcc -o test/test-vcf-sweep test/test-vcf-sweep.o l...
2011 days ago
Installing Platypus on Ubuntu !
...ced_bcf_reader.c gcc -g -Wall -O2 -I. -c -o vcf_sweep.o vcf_sweep.c gcc -g -Wall -O2 -I....are/man/man1 install -p -m 644 faidx.5 sam.5 vcf.5 /usr/local/share/man/man5...x86_64-2.7/platypusutils.so cythoning cython/vcfutils.pyx to cython/vcfutils.c...2011 days ago
- # $1 = vcf file # $2 = input bam file # $3 = output QV file module load samtools NUM_BP=`samtools depth $2 | perl -e '$c = 0; while(){chomp; @s = split(/\t/); if(...
1596 days ago
Samtools commands for bioinformatician !
...put only potential variants bcftools view -c -v sal_vars.bcf > sal_vars.vcf ### note: new command is "ca...threshold # omit -v parameter bcftools call -c sal_vars.bcf > sal_vars.vcf ### normalize (realign) in...1595 days ago
- ...wnloads/annotated$ sudo apt install vcftools [sudo] password for jit...NEW packages will be installed: vcftools 0 upgraded, 1 newly ins...tu.com/ubuntu bionic/universe amd64 vcftools amd64 0.1.15-1 [452 kB]...2ubuntu0.1) ... #MORE at https://vcftools.github.io/perl_module.ht...
1517 days ago
- library(vcfR) vcf_file
1517 days ago
Correct bash command to zip your vcf file
bgzip -c file.vcf > file.vcf.gz tabix -p vcf file.vcf.gz #More at http://www.htslib.org/doc/tabix.html1515 days ago
Create random 10000 SNPs in genome !
...simulation: simuSNP.refseq2simseq.map.txt Generating reference-based vcf file for genomic variants introduced during simulation: simuSNP.refseq2simseq.SNP.vcf [Sun Jan 10 16:05:57 2021]...1203 days ago
