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Hi,
could you tell me that which file in Stereo-seq data is or contains CID whitelist?
And when I get the CID barcode, how could I know the position in the chip?
Thank you !
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The ChIP-seq wiggle output does not look publication quality. The reason is
because it is only plotted at 50bp windows, which is not high enough
resolution. We could simply change this to 10 or…
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I tried to run pipeline on cluster without internet connection, with local docker. But this error:
requests.exceptions.ConnectionError: HTTPSConnectionPool(host='github.com', port=443): Max retries e…
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[Steps in data analysis](http://barc.wi.mit.edu/education/hot_topics/ChIPseq_2016/AnalysisofChIP-seqData2016.pdf)
0. **Preprocessing**:
i) Bad quality -> Tool: Use “FASTQ Quality Filter” and/or …
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Add functionality to visualize methylation patterns or ChIPseq results. This needs good example data first.
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When students attempted to run the genomecov command via bedtools, uniformly the process died at some point.
However, the same command executes just find from the main course project. Perhaps some…
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helper script to map features to genomic regions as BED files (code exists)
Add all mentioned helper scripts to the respective recipes and link from the main repository to the recipe so it’s always i…
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This is related to issue [#1108](https://github.com/deeptools/deepTools/issues/1108#issue-1071108266). Running `bamCompare` with `--skipZeroOverZero` gives incorrect results. From left to right, the a…
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Hi, I really appreciate your efforts making these tools.
I'm a quite new to this area and have a question rather than an issue.
I successfully completed jobs with epic and generated lists of peaks…
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Hello,
I noticed that `Centromics` accept only one ChIP data alignment in bam format.
If this refered to the CenH data, how to use the control (input) data, or `Centromics` do not need control?
Tha…