User: vigprasud

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vigprasud60
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United States
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6 months, 1 week ago
Joined:
5 years, 4 months ago
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Posts by vigprasud

<prev • 31 results • page 1 of 4 • next >
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Plotting ROC curve for categorical variables
... I have results from a manual exercise and an automated exercise to predict pathogenicity of variants. How do I show an ROC that shows FP rate and the performance of the tool ? `Variant Predicted Reported` `2:17959282:C:T LikelyPathogenic Likely Pathogenic` `2:17961268:C:T LikelyPathogenic ...
genetics roccurve regression written 6 months ago by vigprasud60
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Comment: C: Splice prediction from bam files
... DNA-seq bams ...
written 19 months ago by vigprasud60
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Splice prediction from bam files
... Are there any command line tools that specialize in predicting splice site variants from bams? ...
splicesite wes written 19 months ago by vigprasud60 • updated 19 months ago by WouterDeCoster30k
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How to get gemini to display only the column headers of a database
... How do I get gemini to print only the column headers of a database?  Thanks in advance! ...
gemini pedigree variantframework written 2.9 years ago by vigprasud60 • updated 2.9 years ago by karl.stamm3.3k
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(Closed) alternative for mget with ability to resume download upon connection termination
... I am trying to transfer files from a remote server to my machine using smbclient. I am using mget to get all the files. But mget does not perform incremental/resumable downloads, so any network-level errors that occur during transfer will result in an incomplete and/or corrupt output. Is there an eq ...
mget filetransfer linux smbclient written 3.0 years ago by vigprasud60
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Comment: C: VCF genotype generator
... I am trying to find a simulator software not a variant caller given bams [unlike a GGA call].  ...
written 3.1 years ago by vigprasud60
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VCF genotype generator
... Does someone know of a software that can simulate genotypes for a variant with AC and AN counts, given a set of variants? I am assuming AC will help generate the heterozygous variants [0/1] or homozygous [1/1] and AN can give the number of samples needed in a VCF format.      ...
vcf ngs genotypes written 3.1 years ago by vigprasud60 • updated 2.9 years ago by Len Trigg1.2k
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Comment: C: tabix a text file
... Thanks! fixed it. and it worked.  ...
written 3.3 years ago by vigprasud60
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tabix a text file
... Is there a way to tabix a text file and use it for quick retrieval of records? I have these fields in a text file  #CHR START STOP GENE I would like to retrieve the records based on chr:start-pos.    My sample file [sample.txt] has this data chr1    11873   14361   A chr1    14469   29370   B ...
tabix text written 3.3 years ago by vigprasud60 • updated 19 months ago by Biostar ♦♦ 20
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Comment: C: Mapping fastq files with paired reads and member of the paired reads not present
... I tried the script. I got the pairs seperate but I could not get them in order.  R1.fq has  ReadA/1 ReadB/1 ReadC/1  while R2.fq has ReadC/2 ReadA/2 ReadB/2   Is there a way that this program sorts them ?? ...
written 3.7 years ago by vigprasud60

Latest awards to vigprasud

Popular Question 18 months ago, created a question with more than 1,000 views. For VCF genotype generator
Popular Question 18 months ago, created a question with more than 1,000 views. For Looking For Snp'S That Are Significantly Differentially Expressed
Popular Question 19 months ago, created a question with more than 1,000 views. For Looking For Snp'S That Are Significantly Differentially Expressed
Popular Question 2.7 years ago, created a question with more than 1,000 views. For Looking For Snp'S That Are Significantly Differentially Expressed
Popular Question 2.7 years ago, created a question with more than 1,000 views. For Retrieve mutation position and ID for a mutation in hgvs format
Student 2.7 years ago, asked a question with at least 3 up-votes. For ClinVar Mutation representations and Descriptions
Popular Question 2.8 years ago, created a question with more than 1,000 views. For Trying to Understand why and how NGS Reads follow Poisson Distribution
Popular Question 2.8 years ago, created a question with more than 1,000 views. For ClinVar Mutation representations and Descriptions
Popular Question 3.0 years ago, created a question with more than 1,000 views. For Trying to Understand why and how NGS Reads follow Poisson Distribution
Supporter 4.0 years ago, voted at least 25 times.

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