benjytan88

Matrices for velocity analysis

1

Hi, I generated 3 matricss (exon, intron & spanning) using the -V option in dropEst from 10X BAM file. For velocity analysis, I wanted to use the matrices directly to...

estimateDispersions warning message when using data imported from Seurat v3

9

Hi. I am using Seurat v3 for my analysis and I imported the data manually into Monocle as per the instructions here: https://github.com/cole-trapnell-lab/monocle-release/issues/262#issuecomment-465749521 However, when I run the estimateDispersions function,...

Issue with preparing TxDB and GRanges object from GFF file

4

Hi, I am having some trouble making a gene annotation object (TxDB or GRanges) for CHM13 from the GFF file. When making the TxDB object, I got the following warning...

AddOnTargetScores unable to run due to error with creating conda environment

2

Hi developers, I am having troubles running the AddOnTargetScores command as it produces an error while creating the conda environment. The error seems to be due to incompatible packages as...