User: Shixiang

gravatar for Shixiang
Shixiang50
Reputation:
50
Status:
New User
Location:
Shanghai
Website:
http://www.shixiangwan...
Twitter:
ShixiangWang
Last seen:
6 months ago
Joined:
2 years, 3 months ago
Email:
s***************@gmail.com

Posts by Shixiang

<prev • 29 results • page 1 of 3 • next >
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Comment: C: Does MarkDuplicates remove duplicate sequence in library?
... Thanks, I have corrected my question. My data is WES (including tumor and normal) download from NCBI, I use it for mutation calling and copy number calling. Should I remove duplicates? ...
written 6 months ago by Shixiang50
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Does MarkDuplicates remove duplicate sequence in library?
... Dear all, I have a question about sequencing and BQSR mark duplicates which may stupid. One key step of GATK is MarkDuplicates, which removes duplicates like PCR duplicates. My question is that if there are duplicate segments when construct library? And if MarkDuplicates removes such duplicates an ...
gatk wes sequencing written 6 months ago by Shixiang50
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How to get most used protein sequence
... I use r `biomaRt` package to obtain protein sequence from a gene, however, it will return multiple sequence. How to get the most used sequence of them? Is there another method to get a unique sequence for a gene? library(biomaRt) listEnsemblArchives() listMarts(host = 'http://grch3 ...
genome R sequence written 8 months ago by Shixiang50
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Comment: C: Calculating TPM from featureCounts output
... What's the meaning of "meanFragmentLength", could you give an example or more description? ...
written 16 months ago by Shixiang50
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Answer: A: Visualization Of Cnv With Genomic Coordinates In R Ggplot2 Or Ggbio
... copynumber package maybe a good option, please see http://127.0.0.1:11794/library/copynumber/doc/copynumber.pdf ...
written 17 months ago by Shixiang50
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Comment: C: A Quick Way To View Or Check The Order Of Chromosome In Bam File
... May I ask what the difference between three order ways? ...
written 17 months ago by Shixiang50
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Answer: A: Gene Fusion Detection: Rna-Seq Data
... You can take a look at https://www.nature.com/articles/srep21597 ...
written 17 months ago by Shixiang50
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Comment: C: how to normalize chromosome arms?
... I also have this question ...
written 18 months ago by Shixiang50
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Comment: C: Are TCGA data from UCSC cancer browser and TCGAbiolinks different?
... the legacy TCGA data came from hg19 version and TCGA data from the GDC now use hg38 version. therefore, it will have some difference. ...
written 19 months ago by Shixiang50
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Answer: A: How Can I Get The Human Chromosome Centromere Position And Chromosome Length In
... I am also looking for this, and I find all what we need are included in package GWASTools https://www.rdocumentation.org/packages/GWASTools/versions/1.18.0/topics/centromeres ...
written 19 months ago by Shixiang50

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Supporter 22 months ago, voted at least 25 times.

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