User: ghahhari.nm

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Posts by ghahhari.nm

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Answer: A: MNase ChIP-seq paired-end data analysis ?
... Thank you Jennifer! Indeed I tried to set the q value which helped a lot and I found a reasonable number of binding events which is different between treatments and it's good! I also tried to follow the Galaxy tutorial by finding the d value first and after peak calling I found very similar results ...
written 9 weeks ago by ghahhari.nm0
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MNase ChIP-seq paired-end data analysis ?
... Hello everyone! Sorry for long explanation! I did paired-end ChIP-seq for my input and IP samples and I used MNase instead of sonication for DNA fragmentation. I have duplicate of each sample. After converting from fastq. to sam files, I merged duplicates of each sample with bamtools and also sorte ...
chip-seq samtools galaxy bowtie alignment written 10 weeks ago by ghahhari.nm0

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