User: arianc
arianc • 0
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Posts by arianc
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Comment:
C: macs3 peak calling usage
... I deleted the comments by mistake and I don't know how to restore them ...
written 10 days ago by
arianc • 0
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Comment:
C: macs3 peak calling usage
... I've deleted because I didn't want two with the same question but I will not do that again.
According to your advise, when I type:
1. 14000000 - 14 peaks
2. 12631379 (number of nucleotides in the reference file) - 14 peaks.
3. 140000000 - 671 peaks
MACS3 needs at least 100 paired peaks at + and - ...
written 10 days ago by
arianc • 0
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Comment:
C: macs3 peak calling usage
... Schizosaccharomyces pombe ...
written 11 days ago by
arianc • 0
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Comment:
C: macs3 peak calling usage
... I noticed that it is depend on -g parameter. How to determine the correct one? ...
written 11 days ago by
arianc • 0
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Comment:
C: macs3 peak calling usage
... I have checked in IGV, it has peaks ...
written 11 days ago by
arianc • 0
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... Hey!
I am new in CHIP-seq analysis so please be understanding.
I have got CHIP-seq data and I want to do simply regular peak calling. I am typing:
macs3 callpeak -t A.bam -c input.bam -f BAM -g 483151142 -n A
and I have got:
#2 Total number of paired peaks: 0
Anyone know why?
And this a ...
written 11 days ago by
arianc • 0
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Comment:
C: How to check size of genome?
... I want to know how to check number of base pairs in bam file ...
written 12 days ago by
arianc • 0
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... Hey!
It is possible to check the size of genome (number of bp) in bam (or sam or fastq) file?
Thanks in advance. ...
written 12 days ago by
arianc • 0
• updated
12 days ago by
Alex Reynolds ♦ 31k
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Comment:
C: bimodal distribution gc content
... The data is from CHIP-seq experiment ...
written 14 days ago by
arianc • 0
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Comment:
C: bimodal distribution gc content
... Why do you think it is mRNA? ...
written 14 days ago by
arianc • 0
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