Moderator: Biomonika (Noolean)
Biomonika (Noolean) ♦ 3.0k
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- State College, PA, USA
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- http://sites.psu.edu/b...
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- biomonika
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- Last seen:
- 9 months, 1 week ago
- Joined:
- 6 years, 11 months ago
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Bioinformatics of sequences. Sex chromosomes. Enjoying DNA in my computer.
“I'm fascinated by the idea that genetics is digital. A gene is a long sequence of coded letters, like computer information. Modern biology is becoming very much a branch of information technology.”
Richard Dawkins
Posts by Biomonika (Noolean)
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Comment:
C: positive selection project
... What's your timeline for this project? Are you a student? How did you choose this project? You cannot ultimately prove positive selection, only have strong evidence. It will be frustrating to work on this without help, so I would consider switching projects/professors. ...
written 11 months ago by
Biomonika (Noolean) ♦ 3.0k
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... Thank you, this is exactly what I was looking for. ...
written 11 months ago by
Biomonika (Noolean) ♦ 3.0k
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... I need to download WGS for healthy women, ideally sequenced on Illumina HiSeq 2000. I intitially looked into 1000G data ([http://www.internationalgenome.org/data/][1]), but it doesn't seem to specify which machine was used for sequencing. I am interested in low complexity sequences and thus worried ...
written 11 months ago by
Biomonika (Noolean) ♦ 3.0k
• updated
6 months ago by
Biostar ♦♦ 20
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... That's random seed. Same seed ensures same "random" results (useful for reproducibility). ...
written 13 months ago by
Biomonika (Noolean) ♦ 3.0k
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... Actually I don't read SeqAnswers because I miss threads there. That's the only reason. I have spent last 5 years on Biostars though. ...
written 17 months ago by
Biomonika (Noolean) ♦ 3.0k
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... I am interested in **calling errors** (especially indels) in my **PacBio alignments**. I want ALL errors to be reported, not only high frequency ones. Thus, the best for me would an alternative to mpileup for Illumina reads. I am considering two options here:
**1) using PacBio-specific software**, ...
written 17 months ago by
Biomonika (Noolean) ♦ 3.0k
• updated
9 months ago by
tjduncan • 190
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Comment:
C: How To Split A Multiple Fasta
... I can show an example. These commands worked for me:
`csplit panTro5.fa /\>chr.*/ {*}` followed by `for a in x*; do echo $a; mv $a $(head -1 $a).txt; done;`
As you said, very convenient on machines other than yours. ...
written 19 months ago by
Biomonika (Noolean) ♦ 3.0k
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... What specifically do you call within table correlation? ...
written 19 months ago by
Biomonika (Noolean) ♦ 3.0k
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... First import your multiref.fasta as a genome and only then load your bam file. ...
written 19 months ago by
Biomonika (Noolean) ♦ 3.0k
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... Could [this][1] page help?
![for an inferred insert size that is smaller than expected (insertion)][2]
[igv/interpreting_insert_size][3]
[1]: http://software.broadinstitute.org/software/igv/interpreting_insert_size
[2]: http://software.broadinstitute.org/software/igv/sites/cancerinformatics.o ...
written 19 months ago by
Biomonika (Noolean) ♦ 3.0k
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