-
I am working on ATAC-seq mice data and have developed a function to run bias model training across all folds and comparison groups. While testing the function with fold 1 and the group fed_vs_fasted_0…
-
Potentially related to: https://github.com/kaizhang/SnapATAC2/issues/360.
A few folks at the Allen Institute have now noticed the normalized bigwigs from snapatac2 don't follow our expectations of …
-
The dataset types in the gEAR portal are nice and tidy:
```
mysql> select dtype, count(dtype) from dataset group by dtype;
+-----------------------+--------------+
| dtype | coun…
-
editor preferred term: single-nuclei ATAC-seq
alternate terms: snATAC-seq
textual definition: Analysis of the transposase-accessible-chromatin in single nuclei isolated from frozen tissue samples th…
-
When I use macs3 call peak(for atac), I only get 5500 peaks, But when I checked the bio company's report, they got a peak of 30,000.
I want to know the possible reasons。
Here's my code：
macs3 callp…
-
First of all, I'd like to thank you for making freely available your pieces of R code for ATAC-seq analysis.
Running the csaw_workflow.R script under R 4.1.2, the line instruction 'counts
-
### Description of the bug
Hello,
Can you help with this error. It repeats when I try to run this command:
`nextflow run nf-core/atacseq -profile conda --input ./ATAC_samples.csv --outdir ./result…
-
10x atac-seq data does not have UMI. Souporcell gives:
```
Traceback (most recent call last): File "/opt/souporcell/souporcell_pipeline.py", line 104, in assert float(num_umi) / float(num_read_te…
-
#11
-
@Kirans0615
Will update with BCOs as needed:
ATAC-seq BCO - https://biocomputeobject.org/builder?https://biocomputeobject.org/BCO_000495/DRAFT
GDC DNAseq (USes GTAK) - https://biocomputeobject.org/b…