User: vigprasud
vigprasud • 60
- Reputation:
- 60
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- Trusted
- Location:
- United States
- Last seen:
- 10 months ago
- Joined:
- 5 years, 7 months ago
- Email:
- v********@gmail.com
about me
Posts by vigprasud
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2
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... 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 ...
written 10 months ago by
vigprasud • 60
0
votes
1
answer
655
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1
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Comment:
C: Splice prediction from bam files
... DNA-seq bams ...
written 23 months ago by
vigprasud • 60
0
votes
1
answer
655
views
1
answer
... Are there any command line tools that specialize in predicting splice site variants from bams? ...
written 23 months ago by
vigprasud • 60
• updated
23 months ago by
WouterDeCoster ♦ 33k
0
votes
1
answer
730
views
1
answer
... How do I get gemini to print only the column headers of a database?
Thanks in advance!
...
written 3.2 years ago by
vigprasud • 60
• updated
3.2 years ago by
karl.stamm ♦ 3.3k
0
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0
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955
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0
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... 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 ...
written 3.3 years ago by
vigprasud • 60
0
votes
2
answers
2.1k
views
2
answers
Comment:
C: VCF genotype generator
... I am trying to find a simulator software not a variant caller given bams [unlike a GGA call].
...
written 3.4 years ago by
vigprasud • 60
0
votes
2
answers
2.1k
views
2
answers
... 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.
...
7
votes
1
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2.1k
views
1
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... 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
...
0
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3
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1.8k
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3
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... 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 4.0 years ago by
vigprasud • 60
0
votes
3
answers
1.8k
views
3
answers
... Thanks, The singles are combined or are they printed out in different files as well?
...
written 4.0 years ago by
vigprasud • 60
Latest awards to vigprasud
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22 months ago,
created a question with more than 1,000 views.
For VCF genotype generator
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For Looking For Snp'S That Are Significantly Differentially Expressed
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For Looking For Snp'S That Are Significantly Differentially Expressed
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For Looking For Snp'S That Are Significantly Differentially Expressed
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3.0 years ago,
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For Is there a way to filter Pubmed search based on Citation index of the articles or Is there a way to retrieve an articles's citation index in pubmed
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3.0 years ago,
created a question with more than 1,000 views.
For Retrieve mutation position and ID for a mutation in hgvs format
Student
3.0 years ago,
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For ClinVar Mutation representations and Descriptions
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created a question with more than 1,000 views.
For Trying to Understand why and how NGS Reads follow Poisson Distribution
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For ClinVar Mutation representations and Descriptions
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For Trying to Understand why and how NGS Reads follow Poisson Distribution
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