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Given a peak group that contains peaks for samples A, B, and C; in an experiment that also contains samples D and E, apply reextraction protocol to render a reextract peak for samples D and E.
This…
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Hi there.
We noticed 1 to 2 times per day that login lasts around 12s due to agent parsing. This is a graph in last 7 days in which you can see 9 peaks between 10 and 12s and and 5 peaks at around …
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1. [x] group reads based on cluster (make bed files) https://github.com/biomystery/snATAC_pipeline_scanpy_based/commit/33d1d48b0f0357c8a91da4dfbc03a18ab17955ec
2. [x] call peaks on grouped reads http…
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so that the whole workflow can be tested using the test data
something like this
If working with FASTQ data, a straightforward way
to generate a small test set is to subsample the first million l…
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Hi, I'm performing a virtual screening on a library of more than one thousand approved drugs and I'm using both vina and gnina with ad_scoring as the scoring function.
I've noticed that Gnina scores …
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Hello,
We were comparing the percentage of FP32 peak we get on H100 and A100 for miniBUDE. With the `big5` input (and similarly for the `bm_long` input) we've been seeing results like:
| | theor…
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Hi,
I am attaching my snakemake config (yaml).
1. In TOBIAS_snakemake run how many of the tools are run from the tools of the standard TOBIAS? (when I mean tools, I mean those listed in the Wi…
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The SWIG python bindings fail with the following error:
```sh
[build/v2.1.11.1]$ cmake -DBUILD_PYTHON_WRAPPER=ON ../../source/v2.1.11.1
...
[build/v2.1.11.1]$ make
...
[ 97%] Building CXX object…
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Although MACS2 uses AUTO mode by default, our bam files with PE reads from GSM3074495 (part of GSE11622) it handles in SE mode.
So results in `/mnt/stripe/bio/raw-data/geo-samples/GSE112622/chipseq…