-
Hi,
I am calling genotypes in primate trios with samtools mpileup / bcftools call (v.1.2). I noticed remarkable differences between "--constrain trio" and "--constrain alleles" results.
In trio mod…
-
I am really not sure what has happened. These samples worked the other day prior to me upgrading bcbio to get gemini 0.17.2. At first the issue looks like this.
```
...
[2015-11-06T02:06Z] INFO 21:0…
bwubb updated
8 years ago
-
my bam files were mapped by bwa aln which do not have splitter reads info.
but the vcf file output by manta has the number of SR.
for example:
`PR:SR 70,0:42,0`
does those numbers of SR are inferred…
-
```
Single reads mapped as multiple segments may reveal indels and small
rearrangements. These can be detected by finding reads with split mappings to
the same gene, but where the segment mappings …
-
```
Single reads mapped as multiple segments may reveal indels and small
rearrangements. These can be detected by finding reads with split mappings to
the same gene, but where the segment mappings …
-
```
Single reads mapped as multiple segments may reveal indels and small
rearrangements. These can be detected by finding reads with split mappings to
the same gene, but where the segment mappings …
-
Hello,
I tried to upload a VCF file (3.7 MB) which has caused _Failed: Bad Request (400)_ with the following Dockerfile:
```
FROM bgruening/galaxy-stable:dev
MAINTAINER auto script
ENV GALAXY_CONFIG_…
-
This issue is meant for crowdsourcing knowledge about joining NGS/VCF-derived variant databases, which the GA4GH schemas are oriented towards, and clinical variation databases, which tend to prefer [H…
-
I just pulled the newest development branch and packed it with maven. I also used the actual data from the FTP website.
My command:
```
java -Xms5g -Xmx5g -jar exomiser-cli-6.0.0.jar \
--prioritiser…
visze updated
9 years ago
-
Hi!
It seems I am running into a common problem with Headers but can't figure out how to solve it.
I am using PyVCF-0.6.7-py2.7-macosx-10.5-x86_64 and try to iterate records on a VCF file and get thi…