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Problem:
Pipeline is correctly creating the `CLIP_barcode_errors.txt ` file when the barcodes observed does not match barcodes expected. It does not, however, stop demultiplexing from happening which…
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Hi,
First of all i'd like to congratulate with the team for the tools/workflow.
I'd like to ask a question:
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Is Kallisto Bustools suited for demultiplexing pooled cells of a Singe Cell RNA…
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There is a new version of `souporcell` that integrates minor changes to `troublet` in a pull request that I made.
I've made my own `souporcell` container that basically builds on yours, just over-wri…
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The module which creates an Ultraplex barcode file from an annotation sheet is currently called CLIP_SAMPLESHEET_TO_BARCODE. There doesn’t seem to be anything specific to CLIP in this in terms of the …
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As discussed during office hours, it would be great if in addition to the code comments in .proto files you could provide documentation on how to use the available configuration parameters in examples…
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An example of severe transient noise is posted below, but this has been noted in many other sessions. Unless the example is as severe as below, this often goes unnoticed as we have no metric to captu…
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- cutadapt 4.2 with Python 3.10.10
- installed with conda
- using parameters -g -G -a -A
My use case is that I have transposon insertions as paired-end reads that I'd like trimmed from 5' and 3' …
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The base call in gupply has been completed, but the following error has occurred.
Do we need to describe new parameters in config_MinION_mobile_lab.R?
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Demultiplexing and PCR primer…
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Hello,
I'm running MOP2 on a Macintosh computer with Nextflow 21.10.6 build 5660 and Guppy 6.0.1. MOP2 will run if I start it with the fastq files, but if I try to run basecalling with fast5 files …
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Hello everybody,
first of all general information:
Cutadapt version: 2.8
Python version: 2.7.18
I have no information about the installing process (it was done due my university long ago befor…