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With 101bp length illumina sequences,
Recorded in Paper's Supplementary Table1, the Peak memory footprint is 3.24 GB, both unpaired and paired.
But in practical test using v2.4.2, the Peak memory …
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Dear everyone,
I have problem running the snakemake. The stdout/stderr looks like this:
```
Error in rule render_scenario:
jobid: 39
output: results/scenarios/A.yaml
log: logs/rend…
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Hi,
I am using bowtie 2.3.5.1 and try to get sample and other IDs recorded on the `@RG` line. Unfortunately, it seems bowtie2 does not write TABs as separators on the `@RG` line and also copies who…
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- [x] discuss shortly the pipeline and its configuration with MS
- [x] check fastp documentation bc paired end (PE) needs additional sequence_r parameter here https://github.com/epigen/atacseq_…
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when I using the NanoporeBC_UMI_finder-1.0.jar in step 5,it gaves a lot of the output looks like this
2024-03-30 17:10:38 DEBUG NanoPoreSeqAnalyzer_new:201 - Read : c2aa2882-31f3-4e2e-bba3-360322a77…
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**Question or Expected behavior**
I have a reference genome obtained after CANU assembly, purge_dups and long reads polishing with arrow. I'd like to polish with short reads using Next_polish.
Shoul…
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Basically I have a somewhat plausible long read assembly with several tandem repeats. When feeding it to Unicycler w/ `--existing_long_read_assembly` together w/ Illumina short reads, the assembly get…
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For illumina reads that are always 151 bp it makes sense to trim the adapter first, apply quality trimming, and only after that do length and quality filtering.
On nanopore however, this means tha…
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Hello, I have a canu assembly with CLR reads (ca. 30X coverage). I used racon for polishing with the same reads... I got as a result much larger contigs. I don't have a reference genome to compare if …
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editor preferred term: Clone-seq
textual definition: A massively-parallel site-directed mutagenesis approach leveraging next-generation sequencing to rapidly and cost-effectively generate a large num…