User: Stefan.Kurtenbach

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Posts by Stefan.Kurtenbach

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Answer: A: Compare bedgraphs of two treatments after MACS2 callpeak.. do I need SPMR?
... Answering my own question in case someone stumbles upon the same problem... I think you can't compare them. To do so, you'll need to run MACS2 with the -B -SPMR commands, which will normalize the files to million reads. ...
written 2.4 years ago by Stefan.Kurtenbach0
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Compare bedgraphs of two treatments after MACS2 callpeak.. do I need SPMR?
... Hey y'all, I'd appreciate your help here! Do I really need to use the SPMR option in MACS2 to compare the bedgraph outputs to each other? Say same cell line, two conditiones, I run MACS2 for each, using the input as a control. Then i display the bedgraph files in UCSC. Can I compare those like this ...
chip-seq macs2 spmr galaxy written 2.4 years ago by Stefan.Kurtenbach0
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File import after FTP upload doesn't work
... I uploaded fastq.gz files to the galaxy ftp server, and use the "upload file" function to try to import the data. All files process, mean they turn green in the upload tool, and are added to the history but stay gray. There is a small clock, and if I click on the samples in the history it says " Thi ...
fastq ftp upload import written 2.5 years ago by Stefan.Kurtenbach0 • updated 2.5 years ago by Jennifer Hillman Jackson25k

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