Added a new option for AnnotateVcf.pl to zip and tabix index its results file. Also improved the handling of some rarer transcript structures involving start and stop codons. Namely where the first base of a start codon was also the first base of an exon, or where the last base of a stop codon was the last base of an exon. Variants located close to start/stop codons in these structures should be handled more consistently now
<p><b>(</b>A): The summary results with main annotation database; the X axis were labeled with vario...
Summary: One gene can produce multiple transcript variants en-coding proteins with different functio...
move wiki to doc and update documentation for readthedocs (https://agat.readthedocs.io/en/latest/?ba...
Minor update to remove algorithm specific dependancies when parsing VCF files. This should make Ann...
<p>Analysis of predicted protein coding genes displays incidence of ATG and alternative start codons...
Changes Fixes #26 and #41 by annotating VCFs with homoplasmic problematic sites from DeMaio. These ...
Summary: As sequencing becomes cheaper and more widely available, there is a greater need to quickly...
List of pre-computed transcription events constructed by txrevise. See the txrevise home page for mo...
Now possible to use AnnotateVcf.pl on a simple tsv file. There must be entries for the 11 columns (h...
Bug fixed, improved phasing, and PofO assignment for variants with 1/2 genotype. Making SNVs as defa...
International audienceABSTRACTMotivation: Not only sequence data continues to outpace annotation inf...
Fix a bug for UTR detection - the same starting point and end point between CDS and transcript
BackgroundVariant annotation is a crucial step in the analysis of genome sequencing data. Functional...
SUMMARY: The variant call format (VCF) is a generic format for storing DNA polymorphism data such as...
Support for VEP v86 vcf2maf can now liftOver variants before annotation (e.g. from GRCh37 to GRCh38 ...
<p><b>(</b>A): The summary results with main annotation database; the X axis were labeled with vario...
Summary: One gene can produce multiple transcript variants en-coding proteins with different functio...
move wiki to doc and update documentation for readthedocs (https://agat.readthedocs.io/en/latest/?ba...
Minor update to remove algorithm specific dependancies when parsing VCF files. This should make Ann...
<p>Analysis of predicted protein coding genes displays incidence of ATG and alternative start codons...
Changes Fixes #26 and #41 by annotating VCFs with homoplasmic problematic sites from DeMaio. These ...
Summary: As sequencing becomes cheaper and more widely available, there is a greater need to quickly...
List of pre-computed transcription events constructed by txrevise. See the txrevise home page for mo...
Now possible to use AnnotateVcf.pl on a simple tsv file. There must be entries for the 11 columns (h...
Bug fixed, improved phasing, and PofO assignment for variants with 1/2 genotype. Making SNVs as defa...
International audienceABSTRACTMotivation: Not only sequence data continues to outpace annotation inf...
Fix a bug for UTR detection - the same starting point and end point between CDS and transcript
BackgroundVariant annotation is a crucial step in the analysis of genome sequencing data. Functional...
SUMMARY: The variant call format (VCF) is a generic format for storing DNA polymorphism data such as...
Support for VEP v86 vcf2maf can now liftOver variants before annotation (e.g. from GRCh37 to GRCh38 ...
<p><b>(</b>A): The summary results with main annotation database; the X axis were labeled with vario...
Summary: One gene can produce multiple transcript variants en-coding proteins with different functio...
move wiki to doc and update documentation for readthedocs (https://agat.readthedocs.io/en/latest/?ba...