-
# Linked-Reads QC: Summarize sequencing library quality of 10x Genomics Chromium linked reads
The goal of this project is to develop a software tool to quickly report on the quality of a 10x Genomi…
-
Thank you for the good tool . I have a question to ask you for help, when using Kraken2Uniq to mapping , which reads should be choose for 10x genomics data? Both or only read2? The read1 only contain…
oyxf updated
6 months ago
-
Hello, I am a TRUST4 beginner, so the questions may be quite basic. I hope you can patiently answer them.
In my studies, I encountered some situations where when I read a directly downloaded Bam file…
-
Hello,
I noticed the expression matrix in example_inputs is .npy and .p format. However, my expression matrix is matrix.mtx, barcodes.tsv, and genes.tsv from 10X genomics or matrix.txt with row names…
-
Dear Sagnik,
I am trying to use the annotation file within CellRanger (10X genomics) but it doesn't accept non-stranded exons.
In which step are they being considered, and how can I obtain this in…
-
I have 3' scRNAseq data from 10X genomics. I ran the data through cellranger so, I have the possorted bam ouput file. I tried to run regtools on the bam file but, the bed output file has ? in the stra…
-
### Name of the tool
Parse Biosciences Split pipeline
### Tool homepage
https://www.parsebiosciences.com/
### Tool description
similar to cellranger, parse biosciences pipeline allowes analysis o…
-
Hi,
I wanted to have your opinion on using purge_dups with 10X genomics data.
Have you tried to run it with such data?
For the mapping of the reads, do you think it is best to use the `longranger…
-
https://mp.weixin.qq.com/s/gZ3YMcdRpDhi5F2AFYPnkA
-
> Alevin adopts efficient algorithms for cellular-barcode whitelist generation, cellular-barcode correction, lightweight per-cell UMI deduplication and quantification.
Is it possible to use Salmon …