User: trausch

gravatar for trausch
trausch1.4k
Reputation:
1,430
Status:
Trusted
Location:
Germany
Website:
https://tobiasrausch.com/
Scholar ID:
Google Scholar Page
Last seen:
12 hours ago
Joined:
4 years, 8 months ago
Email:
r*********@gmail.com

Posts by trausch

<prev • 151 results • page 1 of 16 • next >
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Answer: A: Automated Primer-Blast like funcionnality
... [Silica][1] searches (multiple) PCR primers across entire genomes using primer3's thermodynamic calculations. It's an installation-free, open-source in-silico PCR web application: [https://www.gear-genomics.com/silica/][2] [1]: https://www.gear-genomics.com/silica/ [2]: https://www.gear-genomi ...
written 2 days ago by trausch1.4k
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3
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81
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3
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Answer: A: how to estimate heterozygosity by sample from a multi-sample vcf file
... bcftools stats -s - | grep "^PSC"-B 1 ...
written 3 days ago by trausch1.4k
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Comment: C: bcftools view filter exclude not working when using logical operators
... I think, & and && have different meanings, see this [filtering tutorial][1]. [1]: http://samtools.github.io/bcftools/howtos/filtering.html ...
written 27 days ago by trausch1.4k
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Comment: C: Explain the definition of DELLY output
... Updated the link. The section about delly is "SV Calling" ...
written 6 weeks ago by trausch1.4k
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Answer: A: Illumina WES intervals file for coverage analysis?
... [ExAC][1] published an interval list of callable regions for WES. In our experience this interval list is pretty well covered by all exome capture kits (illumina, Agilent, ...) and thus, good for QC and coverage analysis purposes. Coordinates are hg19/GRCh37. There are plenty of tools to then calcul ...
written 6 weeks ago by trausch1.4k
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Answer: A: Sanger sequencing data analysis
... We recently developed [Tracy][1] to analyze Sanger sequencing data, works from the command-line and using [web applications][2]. [1]: https://github.com/gear-genomics/tracy [2]: http://www.gear-genomics.com/ ...
written 10 weeks ago by trausch1.4k
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Comment: C: Sanger sequencing data analysis
... The novoSNP URL appears to be dead. Is there an updated one? ...
written 10 weeks ago by trausch1.4k
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164
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Answer: A: Fusion orientation make sense or not
... I think [snpEff][1] can annotate SVs from Delly and Manta in VCF format for potential gene fusions. [1]: http://snpeff.sourceforge.net/ ...
written 10 weeks ago by trausch1.4k
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Answer: A: BWA Mem -M flag (mark split hits) effect on structural variation calling
... For [delly][1], it doesn't make a difference if split reads are marked as secondary or supplementary. [1]: https://github.com/dellytools/delly ...
written 3 months ago by trausch1.4k
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Answer: A: Checking quality of predesigned probes for multiplex qPCR
... I am not sure I fully understand your question. If you want all primer binding sites and possible amplicons across a genome for your multiplexed qPCR design then this tool should work: [https://www.gear-genomics.com/silica/][1] [1]: https://www.gear-genomics.com/silica/ ...
written 3 months ago by trausch1.4k

Latest awards to trausch

Scholar 7 weeks ago, created an answer that has been accepted. For A: Cosmic mutation signature
Scholar 8 weeks ago, created an answer that has been accepted. For A: updating vcf file from rsIDs of dbsnp138 to dbsnp144
Scholar 3 months ago, created an answer that has been accepted. For A: updating vcf file from rsIDs of dbsnp138 to dbsnp144
Scholar 3 months ago, created an answer that has been accepted. For A: updating vcf file from rsIDs of dbsnp138 to dbsnp144
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Methods of classifying, not detecting, structural variation?
Good Answer 3 months ago, created an answer that was upvoted at least 5 times. For A: Get trace data for all four bases from ab1 file
Scholar 6 months ago, created an answer that has been accepted. For A: updating vcf file from rsIDs of dbsnp138 to dbsnp144
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: Methods of classifying, not detecting, structural variation?
Appreciated 7 months ago, created a post with more than 5 votes. For A: list of gene or transcript IDs and their length
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Methods of classifying, not detecting, structural variation?
Scholar 17 months ago, created an answer that has been accepted. For A: updating vcf file from rsIDs of dbsnp138 to dbsnp144
Centurion 20 months ago, created 100 posts.
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: Methods of classifying, not detecting, structural variation?
Good Answer 21 months ago, created an answer that was upvoted at least 5 times. For A: Get trace data for all four bases from ab1 file
Guru 21 months ago, received more than 100 upvotes.
Teacher 21 months ago, created an answer with at least 3 up-votes. For A: Methods of classifying, not detecting, structural variation?
Teacher 23 months ago, created an answer with at least 3 up-votes. For A: Methods of classifying, not detecting, structural variation?
Scholar 2.1 years ago, created an answer that has been accepted. For A: updating vcf file from rsIDs of dbsnp138 to dbsnp144
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: Methods of classifying, not detecting, structural variation?
Good Answer 2.1 years ago, created an answer that was upvoted at least 5 times. For A: Get trace data for all four bases from ab1 file
Appreciated 2.1 years ago, created a post with more than 5 votes. For A: list of gene or transcript IDs and their length
Scholar 2.1 years ago, created an answer that has been accepted. For A: updating vcf file from rsIDs of dbsnp138 to dbsnp144
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: Methods of classifying, not detecting, structural variation?
Teacher 2.4 years ago, created an answer with at least 3 up-votes. For A: Methods of classifying, not detecting, structural variation?
Appreciated 2.4 years ago, created a post with more than 5 votes. For A: list of gene or transcript IDs and their length

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