Moderator: Chris Miller

gravatar for Chris Miller
Chris Miller19k
Reputation:
19,040
Status:
Trusted
Location:
Washington University in St. Louis, MO
Website:
http://chrismiller.sci...
Scholar ID:
Google Scholar Page
Last seen:
1 day ago
Joined:
7 years, 11 months ago
Email:
c***********@gmail.com

I work in the Genome Institute at Washington University in St. Louis, where I lead a group that develops and applies computational tools to give us insight into the origins and progression of cancer.

Posts by Chris Miller

<prev • 1,023 results • page 2 of 103 • next >
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Answer: A: R package information
... Have you tried the instructions here to install from github (found on the first page of google results)? https://github.com/jtleek/genstats/issues/5 source("http://bioconductor.org/biocLite.R") biocLite("devtools") # only if devtools not yet installed devtools::install_github('RSkittl ...
written 5 weeks ago by Chris Miller19k
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Comment: C: Bioinformaticist or bioinformatician?
... This has been discussed previously- closing ...
written 6 weeks ago by Chris Miller19k
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Comment: C: gunzip file.fastq.gz is not working
... We've all been there - you're not an idiot! ...
written 6 weeks ago by Chris Miller19k
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Comment: C: Number of Threads for BWA MEM
... +1 - for most setups, alignment will be I/O bound before any other bottleneck gets hit. ...
written 6 weeks ago by Chris Miller19k
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Comment: C: N in fastq data
... each fastq line has a length (for example, 100 bp). multiply that by the number of fastq entries and that's how many bases of sequence you have. Only after you align the data do you have the ability to talk about sequence coverage across the genome. Seriously, though - There are many resources exp ...
written 6 weeks ago by Chris Miller19k
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Answer: A: N in fastq data
... I think you have some fundamental misunderstandings about how fastq files and sequencing work. You can have any number of short reads from a genome stored in a fastq file. That has no relationship to how large your target genome is. And yes, aligners will generally handle Ns appropriately. ...
written 6 weeks ago by Chris Miller19k
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Comment: C: How to do DMR analysis with BiSeq (for RRBS methylation data)?
... This does not answer your BiSeq question directly, but I've been very happy using metilene for DMR calling. ...
written 6 weeks ago by Chris Miller19k
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Comment: C: Memory-Efficient Way To Transpose Csv/Text File?
... That script explicitly reads the entire file into an array up front, so no, it is not memory-efficient and doesn't answer the question. ...
written 7 weeks ago by Chris Miller19k
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Comment: C: pipeline for neo-antigen identification
... pVAC-seq doesn't require RNA-seq - it's an optional input. It's always nice to have, but should run just fine without it! ...
written 7 weeks ago by Chris Miller19k
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Comment: C: pipeline for neo-antigen identification
... Oh and for HLA-typing, I generally recommend Optitype (for MHC Class I) ...
written 7 weeks ago by Chris Miller19k

Latest awards to Chris Miller

Teacher 25 days ago, created an answer with at least 3 up-votes. For A: Music Smashing The Stack
Oracle 10 weeks ago, created more than 1,000 posts (questions + answers + comments).
Good Answer 10 weeks ago, created an answer that was upvoted at least 5 times. For A: Should I Remove The Unmapped Reads From My Bam ?
Appreciated 10 weeks ago, created a post with more than 5 votes. For C: Should Biostar Be Switched Over To The Stackexchange Network?
Teacher 10 weeks ago, created an answer with at least 3 up-votes. For A: Music Smashing The Stack
Scholar 12 weeks ago, created an answer that has been accepted. For A: Spliting a dataframe based in a chromosome
Scholar 3 months ago, created an answer that has been accepted. For A: Spliting a dataframe based in a chromosome
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: All Possible Substitutions In The Human Reference Genome
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Music Smashing The Stack
Good Answer 3 months ago, created an answer that was upvoted at least 5 times. For A: Any Experiences/Solutions For Problems With The Last R Update?
Appreciated 3 months ago, created a post with more than 5 votes. For C: Should Biostar Be Switched Over To The Stackexchange Network?
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Music Smashing The Stack
Scholar 3 months ago, created an answer that has been accepted. For A: Spliting a dataframe based in a chromosome
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Can Anyone Suggest Me A Script Based Pipeline For Exome Sequencing With Paired E
Scholar 3 months ago, created an answer that has been accepted. For A: Can Anyone Suggest Me A Script Based Pipeline For Exome Sequencing With Paired E
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Why Should I Use Galaxy ?
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Music Smashing The Stack
Scholar 4 months ago, created an answer that has been accepted. For A: Spliting a dataframe based in a chromosome
Good Answer 5 months ago, created an answer that was upvoted at least 5 times. For A: Any Experiences/Solutions For Problems With The Last R Update?
Scholar 5 months ago, created an answer that has been accepted. For A: Spliting a dataframe based in a chromosome
Good Answer 5 months ago, created an answer that was upvoted at least 5 times. For A: Difference Between Somatic And Germline Variant Calling?
Popular Question 6 months ago, created a question with more than 1,000 views. For Cancer Genomics/Genomic Medicine - The Genome Institute at WUSTL
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Appreciated 7 months ago, created a post with more than 5 votes. For C: Should Biostar Be Switched Over To The Stackexchange Network?

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