lwtan90

Hi, Thank you for this wonderful package. I am wondering if there is a way to retrieve the cells in each branch in command line (without relying on the interactives)....

Run time to train new classifier

1

Hi, Thank you for creating the tool. I am trying to build new classifier using a total of 100 markers using a total of 5000 cells (train_cell_classifier). I wonder how...

PrepSCTFindMarkers() is slow: "Recorrecting SCT counts using minimum median counts"

3

Hi, I love using Seurat for all single-cell analysis, but I can't help to provide a user feedback on the PrepSCTFindMarkers() function. It is extremely slow even for a 8000...

Reference for freemuxlet

1

Hi, I am wondering if there is a reference that I can include in my publication for freemuxlet? Thank you. Wilson

Running this pipeline on AWS Batch

6

### Description of feature This is my first time using Nextflow on RNA-seq analysis, and I find that this pipeline works flawlessly. But, I am trying to use this on...

Redundancy in these lines from mapvcf.py if "no-comp-allele" option is turned on?

1

https://github.com/liguowang/CrossMap/blob/bee595c8d1598c79e1f9933a8c02473e2bfc0630/src/cmmodule/mapvcf.py#L197-L222

Don't understand the meaning of "no-comp-alleles"

1

Hi, I have read all your responses to question relating to "VCF" liftovers. I understand the literal meaning of "CrossMap does NOT check if the reference allele is different from...

snps.from.file error to load bed file.

3

I ran into this wierd error from snps.from.file function: `snps.mb.frombed = snps.from.file(file="snps.bed",search.genome=BSgenome.Hsapiens.UCSC.hg19, format="bed") Error in `rownames