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Hello,
I have also been researching the GSE139136 scATAC-seq data recently. However, after downloading the files from SRA and running fastq-dump, I only obtained the paired-end sequencing files SRR…
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I would like to ask how Trust4 can directly analyze paired-end .fastq format data from the 10X Genomics platform for single-cell analysis, instead of analyzing BAM format data. Can you provide support…
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## Bug report
### Expected behavior and actual behavior
I would anticipate that passing arguments such as `--minimap2_args '-k15'` would result in the parameter `minimap2_args` being set to t…
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While running following command
nextflow run main_AMR++.nf -profile conda
N E X T F L O W ~ version 24.04.3
Launching `main_AMR++.nf` [elegant_gauss] DSL2 - revision: f6bfe39b99
A M R …
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Dear Auther,
I got an issue,when I finished my SAW COUNT pipeline,I find my image QCfial and I want to adjust it in the StereoMap,but after I upload tha image (tif format) and then upload the .stereo…
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I am reaching out to seek clarification regarding the pre-processing steps required before using the STAR-fusion software. Specifically, I would like to know whether I need to perform quality control …
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We have encountered an issue related to the use of GTF and FASTA files during our analysis. The official examples provided in your documentation use gencode.v26lift37.annotation.gtf.gz and ucsc.hg19.f…
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# Issue Report
## Please describe the issue:
Hi, I am trying to re-align sequencing results from an adaptive sampling experiment. So I want to run dorado aligner on the fastq_pass/ directory
Th…
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I’m facing an issue with the report below.
we have a total of six samples divided into two groups: treated and control. Each sample has been processed independently up to the DE Analysis step, w…
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### User story:
As a customer, I would like to be able to analyse metagenome samples with taxprofiler,
so that I don't have to analyse my own FASTQ files.
### Acceptance criteria:
- A customer s…