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Hey,
Very interesting program. Is there any support for outputting the vcf to stdout? (e.g. "--out-vcf -" )
and since mostly the .sam will be stored in .bam or .cram, is it possible to input the inf…
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**Description**
**Sub-lineage of:** KP.2.3 (S:∆S31, H146Q, R346T, F456L)
**Earliest sequence:** 2024-4-22, Singapore — EPI_ISL_19096038
**Most recent sequence:** 2024-6-11, Ireland, Dublin — EPI_IS…
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Unlikely this could spread further but S: N334K caught my attention: it has been sampled less than 400x in the course of the pandemic and no lineage with it was greater than 80 sequences.
Moreover it…
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## Describe the issue
Hi. I have a Structural Variation VCF generated from PacBio data using pbsv and I want to annotate with CADD-SV scores which I downloaded from here- https://kircherlab.bihealth…
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```bash
$ ack '[ΑαΒβΓγΔδΕεΖζΗηΘθΙιΚκΛλΜμΝνΞξΟοΠπΡρΣσςΤτΥυΦφΧχΨψΩω]' file.xml
74:
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When we write something like
``` c++
auto xs = make_tuple(...);
auto ys = transform(xs, f);
```
A temporary tuple is created and then move-assigned to `ys`. This should be elided most of the time, b…
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We have identified several strains circulating in Brittany (France) based on a BA.2 backbone but carrying a S:L452R substitution. These isolates carry also ORF1ab:S2519P. There are around 150 similar …
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- [x] #120
- [x] test set level table
- [x] gene level cancer type heatmap
- [x] patient specific bar graph stratified by cancer type
![image](https://github.com/jyaacoub/MutDTA/assets/50300488/…
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We have installed Root and tested that it works. The SpeedSeq sv also works without the -d option. We have added
source /mnt/pan/Data4/speedseq/root-v5-34/bin/thisroot.sh to the end of the speedseq.c…