v.0.2.3 vcf2dadi: to easily convert a VCF file created in STACKS to a dadi input file. This function comes with the commonly used arguments in stackr: map-dependent imputation, whitelist, blacklist, common marker filtering, etc
Fix: Corrected MSK canonical isoforms for four genes as explained in PR #127. Fix: Changed comma-del...
Changes Add support for input directly VCF (--vcf) files instead of FASTA or FASTQ files. These VCF...
O. barthii reference genome based SNP calls. Filtering process described in paper
v.0.2.2 vcf2genepop: to easily convert a VCF file created in STACKS to a genepop input file. This ...
vcf2plink: to easily convert a VCF file created in STACKS to a PLINK input file (tped/tfam format)....
v.0.3.6 fixed a bug in vcf_imputation, the function now calls genomic_converter with all the bell...
This new release enable map-independent imputations of a VCF file created by STACKS. Two options are...
v.0.3.0 Update that makes my coding life easier. Several internal functions to convert from a tidy...
fixed a bug in write_vcf, the function was using REF/ALT coding in integer not character format. Th...
Transforms a vcf to a table - Expanding the INFO field Usage Only one argument needed -i VCF_FILE....
Demographic inferences (Figure S5a and b): Perl script that converts a vcf file including 2 or 3 po...
vcf2maf now supports Delly VCFs, producing MAFs with fields needed by cBioPortal. Fix: Remove INFO/S...
VCF files chimpAndBonobo.vcf and HGDP00222.vcf are the final filtered VCF files ( 4.2 Mb of callable...
Python package called by HDplot_python.py that extracts sequence read counts from the .vcf format in...
Minor update to remove algorithm specific dependancies when parsing VCF files. This should make Ann...
Fix: Corrected MSK canonical isoforms for four genes as explained in PR #127. Fix: Changed comma-del...
Changes Add support for input directly VCF (--vcf) files instead of FASTA or FASTQ files. These VCF...
O. barthii reference genome based SNP calls. Filtering process described in paper
v.0.2.2 vcf2genepop: to easily convert a VCF file created in STACKS to a genepop input file. This ...
vcf2plink: to easily convert a VCF file created in STACKS to a PLINK input file (tped/tfam format)....
v.0.3.6 fixed a bug in vcf_imputation, the function now calls genomic_converter with all the bell...
This new release enable map-independent imputations of a VCF file created by STACKS. Two options are...
v.0.3.0 Update that makes my coding life easier. Several internal functions to convert from a tidy...
fixed a bug in write_vcf, the function was using REF/ALT coding in integer not character format. Th...
Transforms a vcf to a table - Expanding the INFO field Usage Only one argument needed -i VCF_FILE....
Demographic inferences (Figure S5a and b): Perl script that converts a vcf file including 2 or 3 po...
vcf2maf now supports Delly VCFs, producing MAFs with fields needed by cBioPortal. Fix: Remove INFO/S...
VCF files chimpAndBonobo.vcf and HGDP00222.vcf are the final filtered VCF files ( 4.2 Mb of callable...
Python package called by HDplot_python.py that extracts sequence read counts from the .vcf format in...
Minor update to remove algorithm specific dependancies when parsing VCF files. This should make Ann...
Fix: Corrected MSK canonical isoforms for four genes as explained in PR #127. Fix: Changed comma-del...
Changes Add support for input directly VCF (--vcf) files instead of FASTA or FASTQ files. These VCF...
O. barthii reference genome based SNP calls. Filtering process described in paper
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