User: lhaiyan3

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lhaiyan310
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New User
Location:
United States
Last seen:
1 month, 1 week ago
Joined:
2 years, 1 month ago
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Posts by lhaiyan3

<prev • 22 results • page 1 of 3 • next >
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how to use ESTIMATE to infer tumor purity and stromal score from RNA-seq data?
... Dear all: Did anyone use ESTIMATE (http://bioinformatics.mdanderson.org/main/ESTIMATE:Overview) to infer tumor purity and stromal score from RNA-seq before? I am not clear how to use this tool and what is the input file format for this tool? They are just several steps, and i did not figure out ho ...
rna-seq written 6 weeks ago by lhaiyan310
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how to extract the RD, AD, VAF information for the normal and tumor samples from the MuTect2 output vcf file?
... Dear all: I have the tumor-normal pair Mutect2 output VCF file. I want to get the DP, RD, AD and VAF information for both tumor and normal samples. Can anyone please give me some suggestions? Thanks very much. best HY ...
exom-seq mutect2 written 4 months ago by lhaiyan310 • updated 3 months ago by Biostar ♦♦ 20
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Comment: C: comparing single cell RNA-seq and bulk RNA-seq results
... Hi, Did you find the good way to do this? Thanks. HY ...
written 4 months ago by lhaiyan310
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Comment: C: Best way to present the single cell RNA-seq data and bulk RNA-seq expression dat
... Hi, Did you find the good way to do this? Thanks. HY ...
written 4 months ago by lhaiyan310
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Comment: C: How to analyze the targeted RNA-panel data?
... Hi, vchris: Thanks for your great suggestions for me. Sorry I still need your help. Our data is the customerized Qiagen targeted RNAscan panel data. I contacted with the CLC technical support, the CLC biomedical workbench currently did not have the plug in for this kind of analysis. I need to use t ...
written 5 months ago by lhaiyan310
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Comment: C: How to analyze the targeted RNA-panel data?
... Great. Your suggestion is really helpful for me. I believe other people also will think it helpful. I press the "votes" button. ...
written 5 months ago by lhaiyan310
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Comment: C: How to analyze the targeted RNA-panel data?
... Great. Thanks very much for your reply. I will try these tools. ...
written 5 months ago by lhaiyan310
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Comment: C: How to analyze the targeted RNA-panel data?
... It is from Qiagen targeted RNA sequencing. ...
written 5 months ago by lhaiyan310
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Comment: C: How to analyze the targeted RNA-panel data?
... Thanks. I just know it is not the scRNA-seq data. I will check with them how they get the data. ...
written 5 months ago by lhaiyan310
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How to analyze the targeted RNA-panel data?
... Hi, We have the targeted RNA-seq fastq file for 9 genes. The first 12 bp of any given read in the FASTQ file is a unique molecular index (UMI). We want to generate a matrix with the 9 genes in rows, and the UMIs in columns with counts in the table. Can anyone please give me some suggestions how to ...
rna-seq written 5 months ago by lhaiyan310 • updated 4 months ago by h.mon9.7k

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