-
Hi,
First of all, thank you for a great and useful tool.
I have a number of ATAC-seq samples (wild type an mutants). These have been mapped to human reference genome hg38 and I proceeded with pe…
-
Hi All,
I am having issue with peak calling for my ATACseq data. Really appreciate for your help!
#macs3 callpeak -f BAMPE -t ATAC_50K_2.sorted_openRegions.bam_openRegions.bam -g hs -n test -B -…
-
## Describe the bug
Info for many datasets aren't available in the cellxgene_census API.
## To Reproduce
```{r}
census_datasets
-
Good day!
I have been testing the new bridge integration. I have a reference dataset (RNA), bridge (RNA+ADT), and CyTOF. I wanted to follow a similar approach as you showed in Fig. 5 of your latest…
-
Hi,
I noted you said: `This script takes a fasta file containing 1000 bp records and outputs an hdf5 file containing the predictions for each record. ` for `predict_ensemble.py`, I want to know is…
-
Hi again,
is it possible to add the SEACR tool for cut&run analysis?
Thank you.
it appears that at the moment the de facto peak-caller for CUT&RUN (I am unsure on the CUT&TAG, since ATAC-seq optimi…
-
Hi Signac team,
I have been trying to analyse single cell RNA/ATAC Seq (10x) data and when running the CreateChromatinAssay function as below,
```
chrom_assay head(rownames(chrom_assay))
[1]…
IniHP updated
10 months ago
-
Dear all,
I am trying to create a gene activity matrix of a scATAC-seq dataset, but I am always getting this error:
