Lambda Moses

 This is what I got with kallisto and `BUSpaRse` with the pbmc1k v3 chemistry dataset. So I don't think the actual problem comes from kallisto.

Sorry for the confusion. The notebook was written with `bustools` 0.39.2. There are some changes in bustools 0.39.3 that caused this problem. As bustools capture now also supports barcodes and...

Sorry, only my last suggestion is correct. The previous two did not work as expected, so I deleted them. The output has changed too. The `bustools capture` command no longer...

It's not written in the `spliced` and `unspliced` directories. Instead, it's directly written to the working directory, though the directory called "spliced" and "unspliced" are created automatically by `bustools` anyway,...

Oops, forgot to remove that line. I haven't worked with MARS-seq data before, but I have processed a 10x dataset with multiple samples. I processed the samples separately with kallisto...

In Seurat data integration, you start with a list of Seurat objects, each object for one sample. Add the sample ID to a metadata column to the corresponding Seurat object...

What's the problem? You need the `SeuratWrapper` package to directly use Seurat object for velocity.

Have you installed the boost C++ library? Also, you need to make sure that the compiled part of boost is installed, not just the headers. `filesystem` and `system` belong to...

I don't think `velocyto.R` requires a minimum version of boost. It looks like you have boost 1.53.0 installed in `/usr/lib64`. Somehow R doesn't recognize it. On my server, I did...

To be honest, I don't know what really is going on either. I wonder if it's because you can't have the 1.53.0. I kind of wonder if installing a new...