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**1. What were you trying to do?**
Mapping Illumina WGS data to a cactus-minigraph pangenome.
In case it is relevant, the pangenome was constructed with 5 marsupial genomes, which have a few lon…
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Hi,
I am comparing two genomes with a reference genome but BRIG generates alignment with only one genome, it is not showing another genome in the ring.
Please help me to solve the problem.
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when I run this:
singularity exec $pggb_path/pggb_latest.sif wfmash -t 20 $genome_path/ganganF73.genome.fa.gz --query-file-list=/home/user/huyang/shuai/data/pan_test/genome/genome.txt > aln.paf
I …
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Hi, thanks for this fast and easy-to-run aligner :) I have two questions.
1. How the "coverage" in the report was calculated? I had a coverage value 0.95 from a human GRCh38 to human T2T alignme…
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**Sorry for pasting screenshots here, just to present my confuse.**
-Python 3.9.12, whatshap 1.7
-install whatshap by pip
-`whatshap split` default parameter
The species is a diploid and the ref…
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http://genome.ucsc.edu/FAQ/FAQdownloads.html#download19 -> http://hgdownload.cse.ucsc.edu/downloads.html#human ->
http://hgdownload.cse.ucsc.edu/goldenPath/hg38/vsMm10/
Data explanation at the to…
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Hello, It's a wonderful and user-friendly tool for methylation detection.
Here is an issue when applying the alignment step.
```bash
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Found BWA MEM2 index
running: /dshare/ho…
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When you run the docker version, v1.0:
docker pull mrbradley2/clinsv:v1.0
sampleInfo.txt:
NG130ECKCK rg lb /app/input/NG130ECKCK.bam
I also had to make links to the bam files within the alig…
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Instead of doing global alignment on whole genome sequences, align just the searched subtype ORF sequence to the full query sequence.
The searched subtype ORF sequence should be prefixed and suffix…
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I am new to wfmash (but of course have plenty of alignment experience).
I tried an experiment in which I generated a random genome and a second with rearrangements (including random reversals) of i…