User: robbenstijn
robbenstijn • 0
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Posts by robbenstijn
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... I've got ChIP-seq data analyzed with MACS and looks at such:
> chr start end length summit tags -10log10(pvalue) fold_enrichment FDR(%)
> chr1 9911 10616 706 251 77 60.46 4.07 0.30
> chr1 11119 11740 622 185 32 101.80 10.0 ...
written 21 months ago by
robbenstijn • 0
• updated
20 months ago by
le2336 • 60
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... That's great, thanks! Would you happen to have this piece of literature so I can validate my actions? I tried finding it myself but wasn't able to. ...
written 21 months ago by
robbenstijn • 0
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... I'm trying to determine a general region for a promoter relative to a TSS.
I've got data of MAC peaks and their locations and I'd like to check whether these MAC peaks appear somewhere on a promoter region. Therefore I need to determine general a rule of thumb for the promoter region relative to t ...
written 21 months ago by
robbenstijn • 0
• updated
21 months ago by
bharata1803 • 390
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Comment:
C: BAM to BIGWIG
... I did just that and it worked. Now I get another error, would you happen to know what it means? Thanks!
Traceback (most recent call last):
File "BAM_BIGWIG.py", line 136, in
main(*args, **kwargs)
File "BAM_BIGWIG.py", line 62, in main
convert_to_bigwig(wig_file, chr ...
written 21 months ago by
robbenstijn • 0
• updated
21 months ago by
genomax ♦ 59k
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Comment:
C: BAM to BIGWIG
... Yes about that, do you know how to install this?
What I did was that i went to this link: http://hgdownload.cse.ucsc.edu/admin/exe/
Clicked on macOSX.i386/
Clicked on wigToBigWig
And then this file started to download. But I'll probably need to install it right? Now I posted it in the same director ...
written 21 months ago by
robbenstijn • 0
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Comment:
C: BAM to BIGWIG
... I renamed the bam_to_wiggle.py file from the link above to BAM_BIGWIG.py. Does this answer your question?
Thanks for your help btw! ...
written 21 months ago by
robbenstijn • 0
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Comment:
C: BAM to BIGWIG
... I tried this, but when I run:
python BAM_BIGWIG.py Galaxy6RmDupdata.bam (Galaxy6RmDupdata.bam is the name of my bam file)
I get:
Traceback (most recent call last):
File "BAM_BIGWIG.py", line 136, in
main(*args, **kwargs)
File "BAM_BIGWIG.py", line 62, in main
...
written 21 months ago by
robbenstijn • 0
• updated
21 months ago by
WouterDeCoster ♦ 35k
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5 follow
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... I'm trying to convert a BAM file to a BIGWIG file on my mac using the following link:
https://github.com/chapmanb/bcbb/blo...m_to_wiggle.py
Could someone explain what commands I have to put into the terminal (or in Sublime Text)? My BAM file is called Galaxy6RmDupdata.bam. I couldn't figure this o ...
written 21 months ago by
robbenstijn • 0
• updated
21 months ago by
EagleEye ♦ 6.0k
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