User: Jeffin Rockey

gravatar for Jeffin Rockey
Jeffin Rockey1.1k
Reputation:
1,070
Status:
Trusted
Location:
Karimannoor
Last seen:
1 week, 6 days ago
Joined:
3 years, 1 month ago
Email:
j***********@hotmail.com

Posts by Jeffin Rockey

<prev • 133 results • page 1 of 14 • next >
0
votes
2
answers
293
views
2
answers
Comment: C: How to extract filename and change text in the same file
... Hi Ole, Could you please point me to some link or so which would help me understand the {},::: etc. ...
written 3 months ago by Jeffin Rockey1.1k
0
votes
1
answer
204
views
1
answers
Comment: C: Bowtie Index building for wheat genome
... Are you sure the bowtie2-build completed successfully prior to attempting align? *2.bt2l seems to be of 0 size. ...
written 3 months ago by Jeffin Rockey1.1k
1
vote
1
answer
204
views
1
answers
Answer: A: Bowtie Index building for wheat genome
... Install bowtie2 and use *bowtie2-build* to build index. It will automatically build **.bt2l** indices for wheat. ...
written 3 months ago by Jeffin Rockey1.1k
0
votes
2
answers
293
views
2
answers
Comment: C: How to extract filename and change text in the same file
... Hi Malcom, The suggested command appears to be super efficient, even though I did not understand many of the usages. Can you please explain the {=s/.new.vc$f//=}, {}, ::: etc ...
written 3 months ago by Jeffin Rockey1.1k
0
votes
2
answers
293
views
2
answers
Comment: C: How to extract filename and change text in the same file
... Hi Pierre, I did not understand. Would bcftools view do any replacement ? ...
written 3 months ago by Jeffin Rockey1.1k
1
vote
2
answers
293
views
2
answers
Comment: C: How to extract filename and change text in the same file
... Changing ***1s|*** to simply ***s|*** will do replacements for all *Sample1* occurrences. ...
written 3 months ago by Jeffin Rockey1.1k
2
votes
2
answers
293
views
2
answers
Answer: A: How to extract filename and change text in the same file
... In bash this should do. for i in *.new.vcf do ID_NAME=$(basename "$i" .new.vcf) sed -i "1s|Sample1|$ID_NAME|g" $i done Caution: I have used -i with sed. So the actual files will get edited in place. Now added 1s also as to limit the replacement to first line ...
written 3 months ago by Jeffin Rockey1.1k
0
votes
1
answer
639
views
1
answers
Comment: C: ddRAD analysis pipelines
... Stacks issue I could not resolve. ipyrad issue root cause was wrong cut site information given which I corrected. ...
written 4 months ago by Jeffin Rockey1.1k
0
votes
1
answer
266
views
1
answers
Comment: C: Bedtools coverage confuses chromosomes
... Check the separators. MT is there in EHMT1 . Is the bed made in a Windows machine or so? If so dos2unix might help Also what about *GRCh38.dna.primary_assembly.Genome_File.txt* ? ...
written 6 months ago by Jeffin Rockey1.1k
0
votes
1
answer
266
views
1
answers
Comment: C: Bedtools coverage confuses chromosomes
... It should be just that the bed file has mitochondria entry whereas the genome file do not have an entry regarding that. ...
written 6 months ago by Jeffin Rockey1.1k

Latest awards to Jeffin Rockey

Supporter 12 weeks ago, voted at least 25 times.
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: bedtools getfasta for mm9 genome
Guru 3 months ago, received more than 100 upvotes.
Scholar 3 months ago, created an answer that has been accepted. For A: parsing through gtf file
Scholar 5 months ago, created an answer that has been accepted. For A: parsing through gtf file
Scholar 6 months ago, created an answer that has been accepted. For A: parsing through gtf file
Scholar 7 months ago, created an answer that has been accepted. For A: parsing through gtf file
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Scholar 7 months ago, created an answer that has been accepted. For A: parsing through gtf file
Centurion 7 months ago, created 100 posts.
Teacher 11 months ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Good Answer 14 months ago, created an answer that was upvoted at least 5 times. For A: SAM FLAG for primary alignments, secondary alignments and what's their relations
Scholar 15 months ago, created an answer that has been accepted. For A: parsing through gtf file
Scholar 16 months ago, created an answer that has been accepted. For A: parsing through gtf file
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Scholar 22 months ago, created an answer that has been accepted. For A: parsing through gtf file
Teacher 23 months ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Scholar 2.1 years ago, created an answer that has been accepted. For A: parsing through gtf file
Scholar 2.3 years ago, created an answer that has been accepted. For A: parsing through gtf file
Teacher 2.3 years ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Scholar 2.8 years ago, created an answer that has been accepted. For A: parsing through gtf file

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2114 users visited in the last hour