Moderator: Eric Normandeau

gravatar for Eric Normandeau
Eric Normandeau9.4k
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Location:
Quebec, Canada
Website:
http://github.com/enor...
Last seen:
3 days, 14 hours ago
Joined:
7 years, 3 months ago
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e**************@hotmail.com
  • Biologist turned bioinformatician, fluent in Python, R, and bash, now learning C

  • I have worked with microarrays, qRT-PCR and am currently working with RAD sequencing, Genotyping by Sequencing, and RNA-Seq.

  • If you are new to biostar, you can read the following: How to ask Good Questions on Technical and Scientific Forums

Posts by Eric Normandeau

<prev • 648 results • page 1 of 65 • next >
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Simplest genome protein annotation pipeline possible
... I'm often playing with draft genomes of non-model species (mostly in fishes) and we need to annotate these genomes. In cases like this, we do not really care about putative proteins that are based on ORFs or any ab-initio methods. **What we really need is to get a GFF3 annotation file listing known ...
genome annotation proteins written 8 days ago by Eric Normandeau9.4k
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Comment: C: Programming language use distribution from recent programs / articles
... Working :) I'll see if I can tweak the code to add languages or add things as needed. ...
written 10 weeks ago by Eric Normandeau9.4k
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Comment: C: Programming language use distribution from recent programs / articles
... I cloned and compiled (with make) jvarkit. How do I run the code for PubmedCodingLanguages? Java newbie here :) EDIT: I also tried `javac PubmedCodingLanguages.java` but got errors. Not sure it is meant to be compiled by itself. ...
written 10 weeks ago by Eric Normandeau9.4k
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Comment: C: Programming language use distribution from recent programs / articles
... That's more like it ;) Nicely done! What about newer languages, like golang, rust... Do you need to add code to detect these? ...
written 11 weeks ago by Eric Normandeau9.4k
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Comment: C: Programming language use distribution from recent programs / articles
... I up vote your answer and Pierre's code snippet because both are awesome, but this is not really what I am looking for. These are GitHub projects mentioning the word "bioinformatics" in the description (EDIT or somewhere in the file or directory names). It seems the gap between this and published p ...
written 11 weeks ago by Eric Normandeau9.4k
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Comment: C: Programming language use distribution from recent programs / articles
... I saw it pass too but didn't really look at it much last time. It is quite interesting :) ...
written 11 weeks ago by Eric Normandeau9.4k
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Forum: Programming language use distribution from recent programs / articles
... I would be interested to see a breakdown distribution of the different programming languages used for recently published bioinformatic programs. I suspect such a breakdown isn't available, but **would there be a good enough source or quick and dirty way of assessing this?** If possible, without hav ...
programming_language programs forum written 11 weeks ago by Eric Normandeau9.4k • updated 11 weeks ago by Pierre Lindenbaum96k
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Comment: C: Tool Recommendation Wanted For Cleaning Fasta/Fastq Files To Remove Unpaired Rea
... The script is still available and multiple people are reporting using it with success. ...
written 3 months ago by Eric Normandeau9.4k
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Comment: C: Pre-index database from fasta file for vsearch
... Thanks. I wrote a comment in that thread. ...
written 3 months ago by Eric Normandeau9.4k
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Pre-index database from fasta file for vsearch
... I am running multiple instances of `vsearch --usearch_global` and I would like to save on the database indexing time, which represents about 80 to 90% of the time in my case. I haven't seen a way to pre-index databases from fasta file for vsearch but I may have overlooked a documentation source. Do ...
database vsearch index written 3 months ago by Eric Normandeau9.4k

Latest awards to Eric Normandeau

Appreciated 6 weeks ago, created a post with more than 5 votes. For C: What'S The Best Generic Scripting Tool For Bioinformatics?
Appreciated 3 months ago, created a post with more than 5 votes. For C: What'S The Best Generic Scripting Tool For Bioinformatics?
Great Question 3 months ago, created a question with more than 5,000 views. For Snp Detection And Genotyping In Ngs (Next Generation Sequencing)
Popular Question 3 months ago, created a question with more than 1,000 views. For Automate High-Volume Sequence Annotation And Genbank Submission
Popular Question 3 months ago, created a question with more than 1,000 views. For Retrieving Official Gene Symbols From Full Length Protein Names Automatically
Epic Question 4 months ago, created a question with more than 10,000 views. For Correct Way To Parse A Fasta File In Python
Great Question 4 months ago, created a question with more than 5,000 views. For Snp Detection And Genotyping In Ngs (Next Generation Sequencing)
Prophet 4 months ago, created a post with more than 20 followers. For Correct Way To Parse A Fasta File In Python
Prophet 5 months ago, created a post with more than 20 followers. For Correct Way To Parse A Fasta File In Python
Librarian 6 months ago, created a post with more than 10 bookmarks. For Where To Look For Quality Bioinformatics Short Courses And Workshops?
Popular Question 6 months ago, created a question with more than 1,000 views. For Automate High-Volume Sequence Annotation And Genbank Submission
Appreciated 7 months ago, created a post with more than 5 votes. For A: Python 2 Vs Python 3 In Bioinformatics
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Python 2 Vs Python 3 In Bioinformatics
Student 8 months ago, asked a question with at least 3 up-votes. For Automate High-Volume Sequence Annotation And Genbank Submission
Great Question 8 months ago, created a question with more than 5,000 views. For Snp Detection And Genotyping In Ngs (Next Generation Sequencing)
Great Question 8 months ago, created a question with more than 5,000 views. For Code Golf: Mean Length Of Fasta Sequences
Popular Question 9 months ago, created a question with more than 1,000 views. For Automate High-Volume Sequence Annotation And Genbank Submission
Good Question 10 months ago, asked a question that was upvoted at least 5 times. For Post Your Prefered Bioinformatics Short Code
Pundit 10 months ago, created a comment with more than 10 votes. For C: Multiline Fasta To Single Line Fasta
Popular Question 10 months ago, created a question with more than 1,000 views. For Automate High-Volume Sequence Annotation And Genbank Submission
Commentator 11 months ago, created a comment with at least 3 up-votes. For C: Biology Introduction For A Computer Scientist
Popular Question 12 months ago, created a question with more than 1,000 views. For Automate High-Volume Sequence Annotation And Genbank Submission
Great Question 12 months ago, created a question with more than 5,000 views. For Code Golf: Mean Length Of Fasta Sequences
Student 12 months ago, asked a question with at least 3 up-votes. For Automate High-Volume Sequence Annotation And Genbank Submission
Great Question 12 months ago, created a question with more than 5,000 views. For How To Ask Good Questions On Technical And Scientific Forums

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