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Dear @priesgo
While going through the pipeline, I realized that the VCF2FASTA does not masks the regions of low coverage. In amplicon sequencing data, there might be regions deprived of reads. I t…
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I'm thinking about trying this out for a backend for my VEBA eukaryotic binning module (https://github.com/jolespin/veba) as an alternative to MetaEuk.
Looking at the examples here:
```
Helixer.…
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Input: PacBio long read, HiC and Illumina short read data
Assembly: Canu v2.1.1 and then run my assembly through purgeHaplotigs
Variants: FreeBayes
I process HiC and PacBio files as recommended …
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Currently, the ASCII emoticon mappings used by Emoji One only map to a very limited set of Unicode emojis. Also, some of the mappings seem strange to me. I’d like to propose some changes and, in a fol…
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Hello!
Thank you for this brilliant tool.
I've been using it for an application in which syntenies inferred using `mummer`'s `nucmer` (so, at the DNA-level) were partial, when compared with `mumme…
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Hello,
I am trying to use snippy 4.6.0 via miniconda3 on Linux and the output given indicates my samples have 0 variants compared to the reference genome.
The created snps.csv has no data in it and…
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I've got WGS samples without a reference from normal samples and would like to create a "flat"reference.
Following the documentation I use the following code to generate the reference:
```
cnv…
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Current variant specification with rsID/CHROM_POS_REF_ALT does not work for all classes, for example structural variants, CNVs, translocations etc.
tskir updated
2 years ago
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# primary tasks
- [x] download TCGA MAF files
- [x] Map TCGA rows to proteins from our datasets
- DONT INCLUDE KIBA UNTIL WE GET ALL AFLOW CONFS (to ensure consistent test sets and so we don't …
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BPO | [18624](https://bugs.python.org/issue18624)
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Nosy | @malemburg, @warsaw, @ezio-melotti, @bitdancer, @ringof
PRs | python/cpython#10237python/cpython#32279
Files | [adding_aliases.patch…