-
Hi I am a beginner in the field and I am looking to use your pipeline for scRNA seq datasets. I went through the kallisto and bustools pipeline and are having trouble uploading the gene matrix to R. I…
-
Hi,
Not sure if this post is considered an issue or leaning more to a question. The RNA velocity [tutorial](https://www.kallistobus.tools/velocity_tutorial.html) provided links to download materia…
zakiF updated
5 years ago
-
Hi,
Can you provide a direct wrapper for R/python? I'm thinking if it's c, a reader function wouldn't be hard to implement (pybind11/Rcpp). The current solution (text) isn't elegant since it's binary…
-
I have samples that uses the GRCh38 reference genome and I would like to conduct RNA velocity on it. I currently have the fastq files generated by cellranger. however I was wondering where to get the …
-
Note that the pipeline only works for python 2.x and not python 3.x. Hoping this saves other people a bit of time.
-
Thanks for your great work. I am not very sure the TCC is the result of what, and tcc means this script can distinct different isoforms of a gene in 10x data. Thanks a lot
-
I want to collapse BUS data into TCC for differential analysis method shown in
Ntranos, Yi et al., 2019.
I have modified the code from BUS notebooks for generating `cell_gene` dictionary to make a…
-
Hello, I'm running into a very odd issue where some of the entries in the hashtag count matrix are **negative**. Below are some examples of the numbers I see.
.
Unfortunately it is impossible for me to make it work properly on a fresh Eclipse package (2019-03)…
-
I was wondering whether it would possible to support sparse matrices as output of tximport.
This might make tximport more attractive for people working with scRNA-seq data.
I'm currently running i…