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Hi
I have a question in regards to how VG handles repeat regions.
My genome is around 80% repeats, based on some papers I've read and my results with Repeat Masker.
I'm working with a 20 geno…
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The software you developed is fantastic, but I had trouble building 3D models between chromosomes.
```bash
856 Reading ../../data/fat/fat_36_Z_1.0mb.bed
857 Reading ../../data/fat/fat_37_Z_1.0m…
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Go to the search -> ontology.
Expand 'Ancestor' then 'more'.
I wanted to find 'viral process' from this list, but when I try and type in the filter box the page freezes.
cheers
Jane
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10/27/21
1. can we use variant-containing sequences as test data?
2. profile vs counts information?
answer: probability output, total counts, if multiple two then come up with per base counts, as…
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Encountering an issue on data from the ONT 1KG Vienna cohort. I've pulled the CRAMs, dumped to fastq, realigned with minimap2, then run straglr in scan mode as follows:
```
python /vast/scratch/us…
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Hi again,
I started using the official images from quay.io and now I'm running into some issues.
First, I tried using the 3.5.3 tag. I issued a command similar to this (directories and files …
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Hi,
I'm using wtdbg2 v2.5 on a 3G genome with about 60x PacBio Sequel CLR data and chose `-x preset3` for large genomes. Kmer counting was done in 90 minutes with 60 threads. The overlap stage is r…
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```
sssom validate mappings/mgi_alzheimer_mp_hpo.sssom.tsv
```
We should not print stack traces _ever_ unless unhandled exception. This is the output of the above.
```
/Users/matentzn/opt/a…
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Hello, I have the same problem when I use it. This is my fast5 file, the result of viewing with h5ls - r
/ Group
/Analyses Group
/Analyses/Basecall_1D_000 Gro…
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After so many attempts (solved in #320), I finally generated a loom file from my count output from cellranger 10x. Nevertheless, when I examined the error log, it said "Could not retrieve index file f…