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Hi,
Looking at the summary vectors and PRT file at the end of the run I can see that the difference between initial and final `GIIP` in this run gives 563 BCF:
```
…
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When I run the commands
``` bash
vcftools.0.1.14 --vcf test.vcf --out test --recode-bcf
bcftools-1.3.1 view test.recode.bcf
```
bcftools dies with a segfault. This file `test.vcf` contains
```
##f…
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Hello,
I am using delly for somatic and germline SV as well as CNV analysis, and I have some questions for input:
1. The input bam for germline calling: the descriptioon in document is : sorted, …
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The TopicStatus property is not recognized as an Attribute for the Topic, but as an element. My BCF reader is not recognizing BCF status
![screenshot-github com-2021 04 08-13_08_10](https://user-im…
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Hi,
I am trying to run Nanocaller using the command :
`NanoCaller --bam _sorted.bam --ref ./sly.fa -chrom ch00 --mode snps --preset ont --cpu 64 --output Nano_Ch00 | tee stdout.txt`
With the sn…
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Hi
I'm trying to do something quite simple. I'm trying to change the names of some chromosomes in a vcf file that don't match the reference database that i'm using in snpEff.
It gives this err…
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Hi,
I am trying to compile shapeit 1.2.0 but run into problem:
Modified make file:
...
...
HTSLIB_INC=/usr/local/apps/samtools/1.2/include/
HTSLIB_LIB=/usr/local/apps/samtools/1.2/lib/libhts…
maojn updated
2 years ago
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As agreed in BCF Hackathon 2018 p2, we should remove the additional includeAuthorization parameter in GET services (https://github.com/BuildingSMART/BCF-API#428-determining-allowed-topic-modifications…
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Would you be interested in isolating the portion of code that does reading / writing of a BCF file into a data structure into its own repo? That would allow other open-source programs who want to add …
Moult updated
4 years ago
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Hi,
you explicit say on your web BCFier standalone does not support 3D view. This is a pitty. I would like to edit some BCF, but than the 3D-view and the objekts in the BCF are lost on resave.
c…