User: Jeffin Rockey

gravatar for Jeffin Rockey
Jeffin Rockey1.1k
Reputation:
1,070
Status:
Trusted
Location:
Karimannoor
Last seen:
5 days, 15 hours ago
Joined:
3 years, 4 months ago
Email:
j***********@hotmail.com

Posts by Jeffin Rockey

<prev • 134 results • page 1 of 14 • next >
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Answer: A: How to remove all characters after a specific pattern?
... awk -F$'\t' -v OFS="\t" '{split($4,fourth,":");split($6,sixth,":");print $1,$2,$3,fourth[1],$5,sixth[1]}' df.bed ...
written 8 weeks ago by Jeffin Rockey1.1k • updated 8 weeks ago by finswimmer12k
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Comment: C: How to extract filename and change text in the same file
... Hi Ole, Could you please point me to some link or so which would help me understand the {},::: etc. ...
written 7 months ago by Jeffin Rockey1.1k
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Comment: C: Bowtie Index building for wheat genome
... Are you sure the bowtie2-build completed successfully prior to attempting align? *2.bt2l seems to be of 0 size. ...
written 7 months ago by Jeffin Rockey1.1k
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Answer: A: Bowtie Index building for wheat genome
... Install bowtie2 and use *bowtie2-build* to build index. It will automatically build **.bt2l** indices for wheat. ...
written 7 months ago by Jeffin Rockey1.1k
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Comment: C: How to extract filename and change text in the same file
... Hi Malcom, The suggested command appears to be super efficient, even though I did not understand many of the usages. Can you please explain the {=s/.new.vc$f//=}, {}, ::: etc ...
written 7 months ago by Jeffin Rockey1.1k
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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 7 months ago by Jeffin Rockey1.1k
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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 7 months ago by Jeffin Rockey1.1k
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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 7 months ago by Jeffin Rockey1.1k
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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 8 months ago by Jeffin Rockey1.1k
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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 9 months ago by Jeffin Rockey1.1k

Latest awards to Jeffin Rockey

Supporter 6 months ago, voted at least 25 times.
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: bedtools getfasta for mm9 genome
Guru 7 months ago, received more than 100 upvotes.
Scholar 7 months ago, created an answer that has been accepted. For A: parsing through gtf file
Scholar 9 months ago, created an answer that has been accepted. For A: parsing through gtf file
Scholar 10 months ago, created an answer that has been accepted. For A: parsing through gtf file
Scholar 10 months ago, created an answer that has been accepted. For A: parsing through gtf file
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Scholar 10 months ago, created an answer that has been accepted. For A: parsing through gtf file
Centurion 10 months ago, created 100 posts.
Teacher 15 months ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Good Answer 18 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 19 months ago, created an answer that has been accepted. For A: parsing through gtf file
Scholar 19 months ago, created an answer that has been accepted. For A: parsing through gtf file
Teacher 19 months ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Scholar 2.2 years ago, created an answer that has been accepted. For A: parsing through gtf file
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Scholar 2.4 years ago, created an answer that has been accepted. For A: parsing through gtf file
Scholar 2.6 years ago, created an answer that has been accepted. For A: parsing through gtf file
Teacher 2.6 years ago, created an answer with at least 3 up-votes. For A: Faster way to get coverage per base
Scholar 3.1 years ago, created an answer that has been accepted. For A: parsing through gtf file

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