Support for VEP v86 vcf2maf can now liftOver variants before annotation (e.g. from GRCh37 to GRCh38 or hg19 to GRCh37) vcf2maf can store annotated VCF in a different folder using new argument --tmp-dir Updates to isoform overrides and other minor fixe
Added #180 - Add support for VEP annotated VCF files #172 #186 - Log messages from epaa.py script t...
Fix issues when ALT alleles are a SNP and indel, both non-REF When looking up known variants, match ...
<p>This figure shows the processes we perform on each VCF file after a user uploads it to the system...
Support for VEP v86 vcf2maf can now liftOver variants before annotation (e.g. from GRCh37 to GRCh38 ...
vcf2maf now supports Delly VCFs, producing MAFs with fields needed by cBioPortal. Fix: Remove INFO/S...
Added p14ARF as a canonical isoform for CDKN2A, in addition to p16INK4A. vcf2vcf can now run mpileup...
Support for newest VEP (v91), while remaining compatible with older VEP (v88 or older). vcf2maf/maf2...
Fix: Corrected MSK canonical isoforms for four genes as explained in PR #127. Fix: Changed comma-del...
Minor update to remove algorithm specific dependancies when parsing VCF files. This should make Ann...
Set VEP to shift HGVS indels to 3' end Support user-defined isoforms with arg --custom-ens
Added whitelist of known somatic events, to be removed from the ExAC VCF during VEP install ExAC-bas...
Entrez_Gene_Id will now be filled as best as possible, using an included mapping from ENSG IDs VEP n...
Added a data/hg19_to_GRCh37.chain for use with vcf2maf --remap-chain, to simplify lives of users han...
Changed license from LGPL3 to Apache2 Support for VEP v79 and some new biotypes and effects maf2maf ...
Changed license from LGPL3 to Apache2 Support for VEP v79 and some new biotypes and effect
Added #180 - Add support for VEP annotated VCF files #172 #186 - Log messages from epaa.py script t...
Fix issues when ALT alleles are a SNP and indel, both non-REF When looking up known variants, match ...
<p>This figure shows the processes we perform on each VCF file after a user uploads it to the system...
Support for VEP v86 vcf2maf can now liftOver variants before annotation (e.g. from GRCh37 to GRCh38 ...
vcf2maf now supports Delly VCFs, producing MAFs with fields needed by cBioPortal. Fix: Remove INFO/S...
Added p14ARF as a canonical isoform for CDKN2A, in addition to p16INK4A. vcf2vcf can now run mpileup...
Support for newest VEP (v91), while remaining compatible with older VEP (v88 or older). vcf2maf/maf2...
Fix: Corrected MSK canonical isoforms for four genes as explained in PR #127. Fix: Changed comma-del...
Minor update to remove algorithm specific dependancies when parsing VCF files. This should make Ann...
Set VEP to shift HGVS indels to 3' end Support user-defined isoforms with arg --custom-ens
Added whitelist of known somatic events, to be removed from the ExAC VCF during VEP install ExAC-bas...
Entrez_Gene_Id will now be filled as best as possible, using an included mapping from ENSG IDs VEP n...
Added a data/hg19_to_GRCh37.chain for use with vcf2maf --remap-chain, to simplify lives of users han...
Changed license from LGPL3 to Apache2 Support for VEP v79 and some new biotypes and effects maf2maf ...
Changed license from LGPL3 to Apache2 Support for VEP v79 and some new biotypes and effect
Added #180 - Add support for VEP annotated VCF files #172 #186 - Log messages from epaa.py script t...
Fix issues when ALT alleles are a SNP and indel, both non-REF When looking up known variants, match ...
<p>This figure shows the processes we perform on each VCF file after a user uploads it to the system...
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