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Moderator: Jeremy Leipzig

gravatar for Jeremy Leipzig
Reputation:
18,370
Status:
Trusted
Location:
Philadelphia, PA
Website:
http://jermdemo.blogsp...
Twitter:
jermdemo
Scholar ID:
Google Scholar Page
Last seen:
9 hours ago
Joined:
9 years, 7 months ago
Email:
l******@gmail.com

I am a bioinformatics software developer known mostly for my posts on big-ass servers, damn microarray papers, and the reproducible research guilt trip, as well as my review of pipeline frameworks. I have worked in virology, crop genomics, and on various pediatric diseases as a programmer, analyst, and architect. I'm currently a PhD student at Drexel.

Posts by Jeremy Leipzig

<prev • 894 results • page 1 of 90 • next >
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Answer: A: GATK Terra Best Practices pipeline for Mito Variant Calling
... >Currently working on a project to do mitochondrial variant calling on whole exome data. Our probes are about 120 bp and are setup to capture the entirety of the chrM contig at extremely high depth. As I understand it a typical exome kit doesn't include mtDNA probes because the kit would be over ...
written 4 weeks ago by Jeremy Leipzig ♦ 18k
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Comment: C: snakemake and Star aligner code issue
... You don't want `expand` in a wildcard rule - leave that for your targets. A wildcard rule is a recipe, not a manifest. ...
written 4 weeks ago by Jeremy Leipzig ♦ 18k
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Answer: A: The shortcoming of shiny app in building webserver
... I think Jean-Karim's answer pretty much covers it, but to add my experience, Shiny is: - Not "RESTful" - the single-page nature of Shiny pretty much discourages hyperlinks even within the app. - Surprisingly difficult to debug silly things like extra parenthesis, trailing commas - Slow - CRUD-l ...
written 5 weeks ago by Jeremy Leipzig ♦ 18k
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Comment: C: Could I know what you use BLAST for?
... The lady doth protest too much, methinks ...
written 6 weeks ago by Jeremy Leipzig ♦ 18k
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Answer: A: Could I know what you use BLAST for?
... BLAST is a suite of alignment programs. I agree the relevance of BLASTN is not what it was during the Sanger era, but if you're looking to align a protein-coding sequence it is always better to do so in a translationally-aware (i.e. amino acids) manner - that's what the BLAST suite allows. Prog ...
written 6 weeks ago by Jeremy Leipzig ♦ 18k
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Comment: C: List Of Cloud Genomics Companies
... especially the dead ones... ...
written 3 months ago by Jeremy Leipzig ♦ 18k
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Comment: C: List Of Cloud Genomics Companies
... StirPlate is dead... ...
written 3 months ago by Jeremy Leipzig ♦ 18k
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Comment: C: List Of Cloud Genomics Companies
... gxgenomics is dead... ...
written 3 months ago by Jeremy Leipzig ♦ 18k
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Comment: C: List Of Cloud Genomics Companies
... Appistry is dead.... ...
written 3 months ago by Jeremy Leipzig ♦ 18k
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Comment: C: To Cloud or Not to Cloud - Privacy implications of genetic data sharing
... I don't think the Venter facial identification article was widely viewed as "successful". It received a lot of flack and as I remember there was a key member at HLI who begged to be left off this paper. ...
written 3 months ago by Jeremy Leipzig ♦ 18k

Latest awards to Jeremy Leipzig

Scholar 27 days ago, created an answer that has been accepted. For A: Retrieve mutation position and ID for a mutation in hgvs format
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: What Coverage For Genome Re-Sequencing By Illumina ?
Appreciated 5 weeks ago, created a post with more than 5 votes. For A: Why Has The Cost Of Genome Sequencing Decline So Rapidly?
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: What Coverage For Genome Re-Sequencing By Illumina ?
Scholar 5 weeks ago, created an answer that has been accepted. For A: Retrieve mutation position and ID for a mutation in hgvs format
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: What Coverage For Genome Re-Sequencing By Illumina ?
Scholar 7 weeks ago, created an answer that has been accepted. For A: Retrieve mutation position and ID for a mutation in hgvs format
Scholar 11 weeks ago, created an answer that has been accepted. For A: Retrieve mutation position and ID for a mutation in hgvs format
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: Big Ass Servers & Storage
Scholar 3 months ago, created an answer that has been accepted. For A: Retrieve mutation position and ID for a mutation in hgvs format
Great Question 4 months ago, created a question with more than 5,000 views. For Are There Websites Which Allow Users To Post Comments On Peer-Reviewed Articles?
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: What Coverage For Genome Re-Sequencing By Illumina ?
Popular Question 4 months ago, created a question with more than 1,000 views. For Is There A Samtools/Bcftools Setting To Call Variants No Matter How Infrequent?
Popular Question 6 months ago, created a question with more than 1,000 views. For Is There A Samtools/Bcftools Setting To Call Variants No Matter How Infrequent?
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: What Coverage For Genome Re-Sequencing By Illumina ?
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: What Coverage For Genome Re-Sequencing By Illumina ?
Scholar 7 months ago, created an answer that has been accepted. For A: Retrieve mutation position and ID for a mutation in hgvs format
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: How Much Does It Cost To Align A Flowcell In The Cloud?
Great Question 7 months ago, created a question with more than 5,000 views. For Are There Websites Which Allow Users To Post Comments On Peer-Reviewed Articles?
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: How Much Does It Cost To Align A Flowcell In The Cloud?
Great Question 9 months ago, created a question with more than 5,000 views. For Are There Websites Which Allow Users To Post Comments On Peer-Reviewed Articles?
Popular Question 11 months ago, created a question with more than 1,000 views. For Is There A Samtools/Bcftools Setting To Call Variants No Matter How Infrequent?
Popular Question 13 months ago, created a question with more than 1,000 views. For Is There A Samtools/Bcftools Setting To Call Variants No Matter How Infrequent?
Appreciated 13 months ago, created a post with more than 5 votes. For A: Why Has The Cost Of Genome Sequencing Decline So Rapidly?
Popular Question 13 months ago, created a question with more than 1,000 views. For Is There A Samtools/Bcftools Setting To Call Variants No Matter How Infrequent?
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