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Search: Posts Made By: Knaus
Forum: Personalized Genomics 01-09-2014, 05:47 AM
Replies: 3
Views: 10,839
Posted By Knaus
It is a freemium service. So you may upload...

It is a freemium service. So you may upload single VCF files as a free user and filter them without limitations.
However if you want to filter multiple VCF files (e.g. Trio-analysis) you have to...
Forum: Literature Watch 12-13-2013, 02:16 AM
Replies: 1
Views: 3,200
Posted By Knaus
for any of you that do not want to read the...

for any of you that do not want to read the entire paper, I have a short white paper here:

https://www.gene-talk.de/public/GeneTalk_Whitepaper_CompHet.pdf
Forum: Literature Watch 12-12-2013, 07:59 AM
Replies: 2
Views: 2,364
Posted By Knaus
Now GeneTalk will provide users with an extended...

Now GeneTalk will provide users with an extended quality report for every VCF file (with more than 10.000 lines) that is uploaded onto your free account. It is a premium feature that is open to free...
Forum: Bioinformatics 09-16-2013, 03:11 PM
Replies: 2
Views: 9,001
Posted By Knaus
Hey Carol, you could try GeneTalk ...

Hey Carol,

you could try GeneTalk (http://www.gene-talk.de). It is a crowed curated knowledge base with more than 500 users and groing where all the users can leave annotations on disease...
Forum: Personalized Genomics 09-16-2013, 06:21 AM
Replies: 3
Views: 10,839
Posted By Knaus
Lightbulb How to analyze your own exome

Are you curiose about your own exome and genetic variants?

Would you like to get your exmoe sequences and anlyze it by yourself?

-> Participate in the Personal Exome Project run by GeneTalk
...
Forum: Personalized Genomics 09-16-2013, 05:24 AM
Replies: 1
Views: 9,445
Posted By Knaus
well, you could try GeneTalk (www.gene-talk.de)....

well, you could try GeneTalk (www.gene-talk.de). I think it does not support 23anMe data in particularm but if you have the VCF file, you could simply upload it.

Contact the support at GeneTalk...
Forum: Genomic Resequencing 08-29-2013, 06:57 AM
Replies: 3
Views: 2,342
Posted By Knaus
after you have the variant call file (VCF) upload...

after you have the variant call file (VCF) upload it to gene-talk.de (http://www.gene-talk.de) and filter for snps, indels, etc...
Forum: Literature Watch 08-27-2013, 12:56 AM
Replies: 2
Views: 2,364
Posted By Knaus
And this is how an exome with a poor genotyping...

And this is how an exome with a poor genotyping accuracy would look like.
It would be either due to few common variants or too many rare variants that were detected in this exome compared to the FIN...
Forum: Genomic Resequencing 08-27-2013, 12:45 AM
Replies: 2
Views: 1,806
Posted By Knaus
As RockChalkJayhawk said the GT flag in the...

As RockChalkJayhawk said the GT flag in the Format column is missing, and the individual or sample as well. see...
Forum: Literature Watch 08-27-2013, 12:39 AM
Replies: 2
Views: 2,364
Posted By Knaus
Estimating Exome Genotyping Accuracy... Genome Medicine

Estimating Exome Genotyping Accuracy by Comparing to Data from Large Scale Sequencing Projects (http://genomemedicine.com/content/5/7/69/abstract)
...
Forum: Bioinformatics 08-21-2013, 06:51 AM
Replies: 2
Views: 1,289
Posted By Knaus
We tested Macrogen from South Korea: whole exome...

We tested Macrogen from South Korea: whole exome sequencing and variant calling was performed within 4 weeks and was of best quality compared to BGI (China) and LGS Genomcis (Germany).
Afterwards...
Forum: Bioinformatics 08-13-2013, 06:01 AM
Replies: 4
Views: 3,938
Posted By Knaus
Take a look at GeneTalk (www.gene-talk.de) where...

Take a look at GeneTalk (www.gene-talk.de) where you can filter you variants based on population freq of the 1000 Genomes Project and several other options. Your raw VCF data will be preprocessed and...
Forum: Introductions 08-13-2013, 05:56 AM
Replies: 1
Views: 1,892
Posted By Knaus
A whole genome analysis, thats a lot of work and...

A whole genome analysis, thats a lot of work and you will likely find lots of stuff, that you don't know how to interpret. However, I have got my exome sequenced. At the instute of medical genetics...
Forum: Bioinformatics 08-07-2013, 02:49 AM
Replies: 1
Views: 1,453
Posted By Knaus
You could visit www.gene-talk.de, set up a free...

You could visit www.gene-talk.de, set up a free account and upload your data.
Afterwards you can filter for rare variants, your are likely to filter out common variants. use the blacklist filter...
Forum: Bioinformatics 08-07-2013, 02:43 AM
Replies: 1
Views: 2,620
Posted By Knaus
You could visit www.gene-talk.de, set up a free...

You could visit www.gene-talk.de, set up a free account and upload your data.
Afterwards you can filter for rare variants, use the inheritance filter to find comp het variants and use the annotation...
Forum: Bioinformatics 08-07-2013, 02:38 AM
Replies: 1
Views: 1,612
Posted By Knaus
Try to upload the data onto an aacount of yours...

Try to upload the data onto an aacount of yours at www.gene-talk.de
set up a pedigree (affected and unaffected) for your patient data and filter for dominant variants.
you will be likely to find...
Forum: Literature Watch 08-07-2013, 02:35 AM
Replies: 1
Views: 3,200
Posted By Knaus
PLoS One: Filtering for Compound Heterozygous Sequence Variants at GeneTalk

http://blog.gene-talk.de/wp-content/uploads/2013/06/Bildschirmfoto-2013-08-07-um-11.05.47.png (http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0070151)

T. Kamphans, P. Krawitz...
Forum: Introductions 05-22-2013, 05:29 AM
Replies: 0
Views: 874
Posted By Knaus
Greetings from the Charite Berlin / GeneTalk

Hello Seqanswers, hello users

My name is Alex, and I am working for GeneTalk at the Charite in Berlin.
I do the user support and help at any technical issues.

You can read about GeneTalk...
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