User: Ming Tang

gravatar for Ming Tang
Ming Tang2.6k
Reputation:
2,640
Status:
Trusted
Location:
Houston/MD Anderson Cancer Center
Website:
http://crazyhottommy.b...
Twitter:
@tangming2005
Last seen:
1 month, 1 week ago
Joined:
7 years, 8 months ago
Email:
t***********@gmail.com

I graduated from a "wet" lab in 2014. in 2012, I became interested in the bioinformatics field, especially the next generation sequencing field. I really love Unix command line, python and R programming languages. Now I am doing a computational biology postdoc at MD Anderson Cancer Center focusing on glioblastoma genomics.

Posts by Ming Tang

<prev • 301 results • page 1 of 31 • next >
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Comment: C: Obtain ChIPseq peaks from a bedgraph file with continuous regions
... you can call peaks from bedgraph using: macs2 bdgpeakcall usage: macs2 bdgpeakcall [-h] -i IFILE [-c CUTOFF] [-l MINLEN] [-g MAXGAP] [--cutoff-analysis] [--no-trackline] [--outdir OUTDIR] (-o OFILE | --o-prefix OPREFIX) macs2 bdgpeakcall: error: the ...
written 8 weeks ago by Ming Tang2.6k
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Comment: C: No rule keywords allowed after run in snakefile
... under the run: indent the if statement. ...
written 8 months ago by Ming Tang2.6k
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Comment: C: Interesting bioinformatics blogs (2017 edition)
... was googling something else and found this...thanks Vivek for promoting my blog. I now blog at https://divingintogeneticsandgenomics.rbind.io/ :) ...
written 20 months ago by Ming Tang2.6k
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Comment: C: No called peaks from macse 2 and the alignment rate 90%
... load the bam file or bigwig (make it from bam) to IGV, and visually check if there any enrichment in the genome or not. if not, the experiment failed most likely. ...
written 22 months ago by Ming Tang2.6k
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Comment: C: bedops -u does not work properly
... Thanks for the detailed answer. I used `<()` quite a bit as well :) learning to use more BEDOPS. ...
written 3.0 years ago by Ming Tang2.6k
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Comment: C: bedops -u does not work properly
... it is under-appreciated compared with bedtools, another good one :) ...
written 3.0 years ago by Ming Tang2.6k
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Comment: C: bedops -u does not work properly
... Now it makes sense. every input bed file should be sorted. with -u it does not give me errors, but just missing many overlapping entries. bedops is a very good tool BTW:) ...
written 3.0 years ago by Ming Tang2.6k
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Comment: C: bedops -u does not work properly
... yes, you are right. -ec is for checking error. but bedops -u should not expect sorted bed files, right? ...
written 3.0 years ago by Ming Tang2.6k
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Comment: C: bedops -u does not work properly
... even version: 2.4.30 (typical) is having the same issue. ...
written 3.0 years ago by Ming Tang2.6k
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bedops -u does not work properly
... bedops -u is not sorting the bed files bedops --version bedops citation: http://bioinformatics.oxfordjournals.org/content/28/14/1919.abstract version: 2.4.14 authors: Shane Neph & Scott Kuehn #dummy file: cat my.bed chr1 1 5 peak_1 chr1 2 6 pea ...
bed bedops intersect written 3.0 years ago by Ming Tang2.6k • updated 3.0 years ago by Alex Reynolds31k

Latest awards to Ming Tang

Good Answer 4 months ago, created an answer that was upvoted at least 5 times. For A: Peak callers for ChIP seq comparison
Great Question 5 months ago, created a question with more than 5,000 views. For RNAseq heatmap.2 log2FC clustering
Popular Question 14 months ago, created a question with more than 1,000 views. For merge structural variant calls in bedpe format
Appreciated 14 months ago, created a post with more than 5 votes. For A: Peak callers for ChIP seq comparison
Great Question 14 months ago, created a question with more than 5,000 views. For RNAseq heatmap.2 log2FC clustering
Popular Question 14 months ago, created a question with more than 1,000 views. For MACS2 reads report inconsistent with samtools flagstat
Epic Question 14 months ago, created a question with more than 10,000 views. For K-Means Clustering And Heatmap
Teacher 14 months ago, created an answer with at least 3 up-votes. For A: Identification of functionally relevant regions from ChIP-seq experiments
Scholar 15 months ago, created an answer that has been accepted. For A: Wig Files- Macs Vs. Igvtools Count In Focal Amplification
Commentator 17 months ago, created a comment with at least 3 up-votes. For C: Depth of coverage
Epic Question 17 months ago, created a question with more than 10,000 views. For Extract Dendrogram Information From Heatmap Generated By Heatmap.2
Great Question 19 months ago, created a question with more than 5,000 views. For RNAseq heatmap.2 log2FC clustering
Teacher 22 months ago, created an answer with at least 3 up-votes. For A: Identification of functionally relevant regions from ChIP-seq experiments
Great Question 2.1 years ago, created a question with more than 5,000 views. For RNAseq heatmap.2 log2FC clustering
Appreciated 2.1 years ago, created a post with more than 5 votes. For A: Peak callers for ChIP seq comparison
Popular Question 2.1 years ago, created a question with more than 1,000 views. For merge structural variant calls in bedpe format
Great Question 2.2 years ago, created a question with more than 5,000 views. For RNAseq heatmap.2 log2FC clustering
Popular Question 2.5 years ago, created a question with more than 1,000 views. For merge structural variant calls in bedpe format
Popular Question 2.5 years ago, created a question with more than 1,000 views. For convert SNP calls to amino acid change
Good Answer 2.6 years ago, created an answer that was upvoted at least 5 times. For A: Peak callers for ChIP seq comparison
Popular Question 2.9 years ago, created a question with more than 1,000 views. For convert SNP calls to amino acid change
Good Answer 2.9 years ago, created an answer that was upvoted at least 5 times. For A: Peak callers for ChIP seq comparison
Great Question 2.9 years ago, created a question with more than 5,000 views. For RNAseq heatmap.2 log2FC clustering
Appreciated 3.0 years ago, created a post with more than 5 votes. For A: Peak callers for ChIP seq comparison
Popular Question 3.1 years ago, created a question with more than 1,000 views. For convert SNP calls to amino acid change

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