Admin: Istvan Albert

gravatar for Istvan Albert
Istvan Albert ♦♦ 75k
Reputation:
74,740
Status:
Trusted
Location:
University Park, USA
Website:
https://www.ialbert.me/
Scholar ID:
Google Scholar Page
Last seen:
10 hours ago
Joined:
8 years, 3 months ago
Email:
i************@gmail.com

I have published research works in the fields of granular matter physics, network sciencemachine learninguser interfaces and bioinformatics. But above all I like to create useful systems. I  enjoy the process of designing and implementing web based services that stand the test of time. My current project that I dedicate most my time to is an e-book on genomic data analysis:

  • The Biostar Handbook - it is modeled by the content on this site and is a comprehensive guide for beginning bioinformaticians.

I am the  maintainer of this site:

  • Biostar Q&A platform  more of a jack-of-all-trades:  lead developer, interface designer, database manager, sys admin, dev-ops etc. whatever needs to be done.

Currently I work as a  Professor of Bioinformatics at Penn State. Within that position I serve in various roles:

Posts by Istvan Albert

<prev • 4,469 results • page 1 of 447 • next >
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Comment: C: The Biostar Handbook. A bioinformatics e-book for beginners.
... The book is independent of this website and is not a free resource. This is where you can purchase the book: https://biostar.myshopify.com/ ...
written 24 days ago by Istvan Albert ♦♦ 75k
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Answer: A: miRNA-seq pipeline in biostar handbook?
... This topic is not yet covered in the Biostar Handbook. ...
written 4 weeks ago by Istvan Albert ♦♦ 75k
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Comment: C: Forward And Reverse Strand Conventions
... that statement is not correct, it is not exactly 50% - what it is trying to get at is that there is no preference for one strand vs another. ...
written 5 weeks ago by Istvan Albert ♦♦ 75k
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Answer: A: Any workshop in Europe related with advance genome biology and Perl (or R or pyt
... These are posted quite frequently here in the News category. See: https://www.biostars.org/t/news/ ...
written 7 weeks ago by Istvan Albert ♦♦ 75k
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Answer: A: Find stop codon for coding transcript in gencode gtf if not given?
... By the definition, the start and stop codons should be included in features named `CDS` > **CDS**: A contiguous sequence which begins with, and includes, a start codon and ends with, and includes, a stop codon. http://www.sequenceontology.org/browser/current_svn/term/SO:0000316 Hence the end ...
written 7 weeks ago by Istvan Albert ♦♦ 75k
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Answer: A: Should I Join broken pacbio sequences and use them to scaffold Contigs ?
... There is a BAM tag that indicates the ZMW id and thus indicating the same molecule. I would recommend performing a CSS consensus call - this would **merge** the reads from the same ZMWs into a higher quality version of them. Joining (as in concatenating) the sequences would not really make sense i ...
written 7 weeks ago by Istvan Albert ♦♦ 75k
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Answer: A: Calculate length of sequences from fasta file
... Use bioawk, it treats a FASTA/FASTQ record a single awk record, that way you can count the sequences while computing their cumulative length https://github.com/lh3/bioawk then counting the cumulative size of the first ten sequences would be cat reads.fq | bioawk -c fastx 'NR < 11 { size + ...
written 7 weeks ago by Istvan Albert ♦♦ 75k
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Comment: C: What made you interested in Bioinformatics?
... I would say once I had to analyze real bioinformatics data I realized how far "theory" is from "practice". And how much creativity and the ability to chart your own course is required in this field. Unlike other science, nobody knows what they are supposed to be doing. It's awesome! It was then wh ...
written 7 weeks ago by Istvan Albert ♦♦ 75k
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Answer: A: How is it possible that multiple proteins maps to single transcript ids ?
... It helps to look up the definitions for each: https://www.ensembl.org/Homo_sapiens/Transcript/Idhistory?t=ENST00000569114 https://www.ensembl.org/Homo_sapiens/Transcript/Idhistory?t=ENST00000567584 Note how in this case both are marked as "retired". In summary the data mapping stores all mappin ...
written 7 weeks ago by Istvan Albert ♦♦ 75k
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Answer: A: What made you interested in Bioinformatics?
... Here is an interesting, recent paper on the evolving role of bioinformaticians [Computational biologists: moving to the driver's seat, Genome Biology 201718:223][1] Incidentally, the word **BioStar** is meant to capture this exact sentiment and has recognized this direction eight years ago ;-) ** ...
written 7 weeks ago by Istvan Albert ♦♦ 75k

Latest awards to Istvan Albert

Epic Question 2 days ago, created a question with more than 10,000 views. For Recommend Your Favorite Bioinformatics Books
Teacher 6 days ago, created an answer with at least 3 up-votes. For A: What Are Numbers Every Bioinformatician Should Know?
Commentator 24 days ago, created a comment with at least 3 up-votes. For C: Stranger Things: unexpected limitations of popular tools
Good Answer 5 weeks ago, created an answer that was upvoted at least 5 times. For A: Experienced Bioinformatics Analyst, Bioinformatics Consulting Center, Pennsylvan
Good Answer 5 weeks ago, created an answer that was upvoted at least 5 times. For A: Converting Blast Output To Sam Format
Commentator 6 weeks ago, created a comment with at least 3 up-votes. For C: Global Sequence Alignment
Epic Question 6 weeks ago, created a question with more than 10,000 views. For Where To Advertise Or Find Bioinformatics Jobs
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For A: Improved Peer Review Of Rna-Seq Bioinformatics In Science Publications
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: Illumina'S New Reduced Resolution Q (Phred) Scores - Good Or Bad?
Scholar 8 weeks ago, created an answer that has been accepted. For A: Entrez.esearch url bug
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: Is The Biostar Fading? (Updated For 2014)
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: Illumina'S New Reduced Resolution Q (Phred) Scores - Good Or Bad?
Scholar 8 weeks ago, created an answer that has been accepted. For A: Entrez.esearch url bug
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: Illumina'S New Reduced Resolution Q (Phred) Scores - Good Or Bad?
Commentator 8 weeks ago, created a comment with at least 3 up-votes. For C: Global Sequence Alignment
Scholar 9 weeks ago, created an answer that has been accepted. For A: Entrez.esearch url bug
Teacher 11 weeks ago, created an answer with at least 3 up-votes. For A: Am I Sabotaging Myself By Getting A Masters Instead Of A Phd?
Scholar 11 weeks ago, created an answer that has been accepted. For A: Entrez.esearch url bug

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