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I would like to use LACA for shorter amplicons (600 bp) from ONT sequencing.
Can you provide the following options in the laca init so that the config file can work with alternative sequence input…
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Thank you very much for the nice tool. I was wondering how suitable is starchip for amplicon based fusion detection in RNA-seq workflows (targeted amplicon-based RNA-seq using reverse-transcribed cDNA…
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Hi
I have had successful runs with mummer2circos but this time it fails with the following error:
```
Traceback (most recent call last):
File "/home/subudhak/miniconda3/envs/mummercircos/bin…
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Hello,
When using CRISPRessoPooled with the --alternate_alleles parameter, what goes in the AMPLICON_NAME and AMPLICON_SEQUENCE columns of the description file? Should all alleles go in those colu…
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The code in PoolListHandler.get identifies amplicon sequencing pools by process of elimination (i.e., any pool that is is not made up of any kind of known pool plate is treated as an amplicon sequenci…
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Hi,
I am attempting to run your code on targeted sequencing data from an S5 instrument that has probes across multiple chromosomes. For your probe information file there are required sections for G…
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Hello,
I have another question, are you planning to include more databases in your tool, e.g. UNITE and Silva?
Cheers,
Dominika
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Hi,
We are experiencing error during the processing of file_0.todo. It says "OSError: [Errno 26] Text file busy". We are running in Ubuntu 22.04 virtual box. It seeems the error occurs when Thread…
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In the AmpliconClassifier documentation is detailed, that only cyclic amplicons can be classified into BFB or ecDNAs.
However, in my analysis, I noticed that some were classified as Complex, but the…
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### Description of feature
Context in [this Tweet](https://twitter.com/nilshomer/status/1498528699670433795?s=20&t=1uKZpUz-ZkBQKuCobNvyGQ). Used by @peterk87 @fmaguire in [this pre-print](https://www…