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Hi,
I follow [Incorporating Illumina RNAseq into AUGUSTUS with Tophat](http://bioinf.uni-greifswald.de/bioinf/wiki/pmwiki.php?n=IncorporatingRNAseq.Tophat). Unfortunately, it requires `intron2exex.pl…
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Hi,
is there a systematic way to find meaningful cutoffs for -s/-w? How do you decide on these?
Best,
Carsten
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Hi,
Thank you for this material. In the first code block `evaluate_vary_situations_public.ipynb`, what do `adata_rna_sel` and `adata_atac_sel` refer to? Is it ok to simply provide `adata_rna` and `…
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just a suggestion here, i think it would be great if the config directory `~/.config/atac` can be used instead of env variables
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Hello:
When run `CreateMotifMatrix`:
```{r}
library(chromVAR)
library(JASPAR2020)
library(TFBSTools)
library(motifmatchr)
library(BSgenome.Mmusculus.UCSC.mm10)
DefaultAssay(pbmc)
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Full_Name: Kip Killpack
Version: updated today
OS:
spec:
log:
Submission from: chou.elen.utah.edu (155.99.23.202)
Submitted by: killpack
If the internal signal is named different from the entity …
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Include info such as cell count, etc per each library
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I have to annotate novel diplonema genome. This species contains non-cannonical intron (Non GT-AG). So that I chose to use braker.
I have run command prothint to generate and prothint_augustus.gff…
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Hello:
When run `CreateMotifMatrix`:
```{r}
library(chromVAR)
library(JASPAR2020)
library(TFBSTools)
library(motifmatchr)
library(BSgenome.Mmusculus.UCSC.mm10)
DefaultAssay(pbmc)
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**Is your feature request related to a problem? Please describe.**
I'm running a test in a github action using `snakemake/snakemake-github-action@v1`. The one test that's failing has no error outp…