vcf2plink: to easily convert a VCF file created in STACKS to a PLINK input file (tped/tfam format). This function comes with the commonly used arguments in stackr: map-independent imputation, whitelist, blacklist, common marker filtering, etc. data_pruning: to prune your dataset with whitelist, blacklist of individuals, erase genotypes, use common markers and other filtering (see function argument while waiting for the upcomming documentation)
Since its introduction in 2011 the variant call format (VCF) has been widely adopted for processing ...
Fix: Corrected MSK canonical isoforms for four genes as explained in PR #127. Fix: Changed comma-del...
v.0.4.6 I'm pleased to announce that stackr parallel mode now works with Windows! Nothing to instal...
This new release enable map-independent imputations of a VCF file created by STACKS. Two options are...
v.0.2.3 vcf2dadi: to easily convert a VCF file created in STACKS to a dadi input file. This functi...
v.0.2.2 vcf2genepop: to easily convert a VCF file created in STACKS to a genepop input file. This ...
v.0.3.0 Update that makes my coding life easier. Several internal functions to convert from a tidy...
v.0.3.6 fixed a bug in vcf_imputation, the function now calls genomic_converter with all the bell...
This is the final cleaned and filtered VCF file used for downstream population genetic and landscape...
dart2df_genind_plink: swiss army knife tool to prepare DArT output file (wide or binary format) for ...
plink map file for quality filtered and pruned marker set for simulated data set
Changes Add support for input directly VCF (--vcf) files instead of FASTA or FASTQ files. These VCF...
v.0.2.7 Added a NEWS.md file to track changes to the package. New function: individuals2strata. Se...
National audienceThe software DiscoSnp++ is designed to detect genomic variants such as Single Nucle...
fixed a bug in write_vcf, the function was using REF/ALT coding in integer not character format. Th...
Since its introduction in 2011 the variant call format (VCF) has been widely adopted for processing ...
Fix: Corrected MSK canonical isoforms for four genes as explained in PR #127. Fix: Changed comma-del...
v.0.4.6 I'm pleased to announce that stackr parallel mode now works with Windows! Nothing to instal...
This new release enable map-independent imputations of a VCF file created by STACKS. Two options are...
v.0.2.3 vcf2dadi: to easily convert a VCF file created in STACKS to a dadi input file. This functi...
v.0.2.2 vcf2genepop: to easily convert a VCF file created in STACKS to a genepop input file. This ...
v.0.3.0 Update that makes my coding life easier. Several internal functions to convert from a tidy...
v.0.3.6 fixed a bug in vcf_imputation, the function now calls genomic_converter with all the bell...
This is the final cleaned and filtered VCF file used for downstream population genetic and landscape...
dart2df_genind_plink: swiss army knife tool to prepare DArT output file (wide or binary format) for ...
plink map file for quality filtered and pruned marker set for simulated data set
Changes Add support for input directly VCF (--vcf) files instead of FASTA or FASTQ files. These VCF...
v.0.2.7 Added a NEWS.md file to track changes to the package. New function: individuals2strata. Se...
National audienceThe software DiscoSnp++ is designed to detect genomic variants such as Single Nucle...
fixed a bug in write_vcf, the function was using REF/ALT coding in integer not character format. Th...
Since its introduction in 2011 the variant call format (VCF) has been widely adopted for processing ...
Fix: Corrected MSK canonical isoforms for four genes as explained in PR #127. Fix: Changed comma-del...
v.0.4.6 I'm pleased to announce that stackr parallel mode now works with Windows! Nothing to instal...