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I installed ATACgraph according to instructions, and attempted to run the demo. Not sure if it's user error, but the first command, 00_rmChr doesn't work for me:
`$ ATACgraph 00_rmChr -h`
```
/…
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Hello TOBIAS developer,
I read the paper published by [Steven Henikoff](https://www.nature.com/articles/s41467-019-09982-5#auth-Steven-Henikoff).
They show "CUT&Tag protects a “footprint” spanning …
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Hi,
Every now and then, when I am given "GSE" accession number and I wish to convert it to "SRP", I receive with empty output, this for example happened to me Today for `GSE209835`:
```
(pysrad…
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Hello,
I am attempting to run cinaR with this code. I have 20 samples, composed of 2 replicates of 10.
`results
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- Move everything into quarto
- Bootcamp only covers shell and R
- No Python anywhere
- Rewrite ChIP / accessbility lectures in R using bioconductor / ComplexHeatmap / valr. No deeptools
- Skip pr…
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**Checks before submitting the issue**
* [x] I installed the latest Dictys version successfully
* [X] I downloaded the whole folder for the tutorial
* [X] I ran the tutorial cells and notebooks (if…
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When I run different pipelines, including RNA-seq and ATAC-seq, I always encounter the following error. Although it can sometimes be temporarily resolved by using the `-resume`, it still frequently oc…
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@JGASmits, could you provide a (set of) minimal sample(s) that can be used for testing?
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Hi,
Thanks for the effort your team has put into making dcHiC.
It's really great to have a method that support the multiple datasets comparison.
I have some inquiries and would greatly appreciate y…