-
Hi,
When running the test example, the `pseudoalignments.bam` is 1.6 Mb and the `FastViromeExplorer-reads-mapped-sorted.sam` file is empty. I think that it is due to the samtools software whose opti…
-
**Describe the issue**
Hi I'm running kb count in a Docker image being run on Cromwell and Google Cloud Platform and the command (below) is SIGKILL'd at the bustools sort step. It seems to me that it…
-
Hi,
I want to mix two fastqs from different experiment together and want to track which cell is from which experiment, so I added additional 8bp barcode to all the R1 fastqs so I can differentiate th…
-
Hello,
running kallisto on a Linux server, I get a meaningful abundance.txt file but the abundance.h5 file is empty.
kallisto throws lots of HDF-DIAG errors (see below), but still manages to produ…
-
I try to run `kallisto pseudo` after installing the latest version 0.46.1 from the binary version for linux.
The command I use:
```
kallisto pseudo -i transcripts.idx -o Kallisto -b batch.txt
…
-
When I input the following code in miniconda3 of windows10:
`kb count -i "M:\My Drive\tools\kallisto\intron\index.idx" -m 100000000 --overwrite -g t2g.txt -c1 cdna_t2c.txt -c2 intron_t2c.txt -o bu…
-
Hi,
Just found this wonderful tool which suits really well with what I am working on. However, in our lab we use kallisto for quantification. The counts after tximport are not integer and I cannot …
-
KB-python fails when it gets to the sorting step. I ran it with --verbose, as shown below and with --lamanno for Velocity. In addition, regardless of whether I input my own barcodes are use the defaul…
-
Thank you so much for your great tool, I really like the possibility of specifying new technologies, RNA-velocity, and the upcoming feature barcoding option!
**Describe the issue**
I tried to spe…
-
I'm getting a segmentation fault when I run `pseudo` with the -b switch, and am not sure why. For example, when I run `kallisto pseudo -i ../ref/drosophila_melanogaster/transcriptome.idx -o ../test -b…