User: waqasnayab

gravatar for waqasnayab
waqasnayab140
Reputation:
140
Status:
Trusted
Location:
Pakistan
Last seen:
1 day, 2 hours ago
Joined:
2 years, 7 months ago
Email:
w*********@gmail.com

Posts by waqasnayab

<prev • 80 results • page 1 of 8 • next >
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Loss of Heterozygosity tools for WGS / WES samples
... Hi, Although, there are many tools available for loss of heterozygosity (LOH) in paired samples (tumor and non-tumor), whether they are WGS or WES. But, I am wondering is there any LOH tool available for disease other than cancer, for example, I have WGS and WES family data of hematological disord ...
genome next-gen snp written 8 days ago by waqasnayab140
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Comment: C: Match column contents of one file and pasted whole line if match found
... Hi Kevin, Yeah, nice observation, I found four others positions within my lookup file that are repeated two times: 2 23103039 2 23103355 2 38092026 2 73717720 Further, I cross-checked with your first command, all fine, and than I run the last command. Seems to me it wo ...
written 14 days ago by waqasnayab140
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Match column contents of one file and pasted whole line if match found
... Hi, I have two files. bigfile1.txt pos100 5 149275986 149275987 sample1 1 NN 15 NN 18 NN pos10 1 12907457 12907458 sample2 1 NN ...
genome next-gen sequence snp written 14 days ago by waqasnayab140 • updated 13 days ago by cpad01123.7k
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Comment: C: Grepping from a specific column with pattern list
... Thanks Micehal for that, I will keep the solution into my wish list somewhere, ...
written 28 days ago by waqasnayab140
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Comment: C: Grepping from a specific column with pattern list
... Yes, in my file there is a special character ^M a classical problem dos2unix than your command worked for me, now its all ok......,,,,,,,!!!!!!! Perfect, Thanks, Waqas, ...
written 28 days ago by waqasnayab140
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Comment: C: Grepping from a specific column with pattern list
... Hi Kevin, I tired but nothing happened, than I tried by changing the {FS=" "} to `{FS="\t"}` but same result. Although worked well on test file.,,,,,,,,,,,, ...
written 28 days ago by waqasnayab140
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7 follow
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Grepping from a specific column with pattern list
... Hi, I have a pattern file with IDs: IID 1 10 1098 1099 11 1130 12 121 127 I want to grep lines using this pattern file from a big file. In big file, the IDs are present in line two. The dummy format of big file is as follows: FID IID some_more_columns ...
sequence next-gen written 28 days ago by waqasnayab140 • updated 28 days ago by cpad01123.7k
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Comment: C: Delete ID only if not presnt in next line (lines are in pair)
... Yes, it worked really very well, in fact perfect..,,,,,!!!! Thanks Pierre ...
written 7 weeks ago by waqasnayab140
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Delete ID only if not presnt in next line (lines are in pair)
... Dear Community, My this question is the follow-up / extension of https://www.biostars.org/p/277820/#277883 I have a file like: rsid1:sample1,sample2,sample3 rsid2:sample1,sample5 rsid3:sample4, sample6 rsid4:sample6 Each line is paired with the second line, that is , rsid1 and rs ...
snp sequencing written 7 weeks ago by waqasnayab140 • updated 7 weeks ago by cpad01123.7k
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Comment: C: Copy Sample ID from VCF file to ID column
... YES, Pierre, it worked for me, although just cross-checking a bit, will further confirm this command...,,,!!!!! ...
written 8 weeks ago by waqasnayab140

Latest awards to waqasnayab

Popular Question 6 days ago, created a question with more than 1,000 views. For Interproscan nucleotide sequence scanning
Popular Question 8 weeks ago, created a question with more than 1,000 views. For Interproscan nucleotide sequence scanning
Popular Question 4 months ago, created a question with more than 1,000 views. For Interproscan nucleotide sequence scanning
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Student 21 months ago, asked a question with at least 3 up-votes. For Donation of Old / Refurbished Computer Servers for setting up Bioinformatics Lab

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