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• Is It Nonsense To Have Sift/Polyphen2 Scores For Nonsense Variants ?
  Hello All, I'm using annovar (which sometimes uses dbNSFP) for annotating variants against diffe...
• Help Needed With Annovar - Csv Summary
  I tried to use AnnoVar to annotate the final VCF output files, and used the "summarize_annovar.pl...
• how to generate setID file?
  i want to generate setID file for SKAT(r package) so i use "annovar" but i don't know how to us...
• Indel Prioritizing Method To Extract Most Damaging Effect On Protein
  Dear All, I have been using ANNOVAR for a while with my tumor samples. I do not have control ra...
• Are GERP RS scores for a variant specific for the alternate allele or just the region?
  I'm using Annovar, and from my understanding, GERP scores are meant for a position, not a specifi...
• Finding deleterious score from just RSID
  I have a list of just RSIDs, about a million. I wanted to find their deleterious score, like a C...
• Annovar and CADD Annotation
  I CADD scored my set of variants called on build 38 by using Annovar. Then I converted my coordin...
• MutationTaster: automatic vs score
  Why would I care if the classification into disease vs polymorphism was automatic or not? Wouldn'...
• NGS variant prioritization tools/script
  I am looking for a tool or script to perform variant prioritization on annotated data from annova...
• Annotation of Rat WGS data by AnnoVar
  I want to annotate Rat WGS data using AnnoVar software. WGS reads are mapped to rn5 reference. T...
• Annovar: Functional Annotation Of Genetic Variants From High-Throughput Sequencing Data
  ANNOVAR is an efficient software tool to utilize update-to-date information to functionally annot...
• Transcription factor binding site in Annovar
  I used Transcription factor binding site in Annovar to analyze my exome sequencing data. I am su...
• Can Anyone Suggest Me A Script Based Pipeline For Exome Sequencing With Paired End Reads Generated By Illumina For Tumor Samples.
  Can anyone suggest me a pipeline with scripts for exome sequencing starting from the raw reads(p...
• updated clinical variant annotation software and databases
  Hi all! I know it may sound strange, but I would like to ask you all what software do you use fo...
• Annovar Output Interpretation
  Hi fellow members, I would like to get some explanation from those respected seniors who are exp...
• Get annotation scores from dbsnp rsids
  I have a list of dbSNP rs ids and I would like to get scores for the 16 or 17 annotation tools as...
• How To Extract Scores From Wigfix Files
  Hi, I've downloaded "Conservation scores for alignments of 45 vertebrate genomes with Human" and...
• Use ANNOVAR to annotate SNPs
  I am using ANNOVAR to annotate WGS SNPs with default parameters, and I get two output files, vari...
• How Do I Tell Topgo How Scores Work?
  From the vignette: resultKS <- runTest(sampleGOdata, algorithm = "classic", statistic = "ks")...