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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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Thank you for your development. I am using Nanosim to simulate ONT data, I use 32 threads and 256GB memory to run training stage, but it reported out of memory error. The command is
```bash
read_a…
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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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**Is your feature request related to a problem? Please describe.**
We ran into an issue where too many low coverage samples resulted in a pretty much empty vcf-to-fasta file, affecting the results of…
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Thank you for developing this wonderful tool!!!
I followed the recommended method of creating a conda environment and installing BASALT via using basalt_env.yml.
I downloaded the latest set of fil…
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### Operating System
Other Linux (please specify below)
### Other Linux
Rocky Linux
### Workflow Version
v1.5.0
### Workflow Execution
Command line (Cluster)
### Other workflow execution
_No …
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### Description of the bug
sample.csv:
```
sample,fastq_1,fastq_2,feature_type
NPC_Astro_Diff_aBeta,NovaSeqX_20240927_LH00181_0041_B22TF5VLT3_bcl-convert_KL_NPC_Astro_Diff_20240916_scRNA_10X_Flex_NP…
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### Description of feature
I started a sarek run (`v3.4.2`) providing a custom reference in the form of a bgzipped FASTA. The run from FASTQs started normally and did not run into any errors until th…
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Hi,
I was able to get the trinity variant calling script to run on my HPC but I think now looking into it, it only ran one of the samples when I used this script, I only see information for the sam…
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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…
cjw85 updated
1 month ago