User: Hanif Khalak

gravatar for Hanif Khalak
Hanif Khalak1.2k
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Location:
Doha, QA
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Last seen:
3 years, 6 months ago
Joined:
7 years, 4 months ago
Email:
h***********@gmail.com

bioinformatician, computational geneticist, HPC manager

Posts by Hanif Khalak

<prev • 63 results • page 1 of 7 • next >
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Answer: A: Constructing Compute Resources In Support Of Ngs In A Hospital Setting
... A contender with Isilon in terms of storage might be Scalable Informatics' JackRabbit, and it has converged computing (i.e. storage + cluster together) - should be cheaper but don't know how much. ...
written 3.6 years ago by Hanif Khalak1.2k
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Comment: C: What Needs Needs To Be Parallelized In Phylogenetics?
... CopyCat (http://ab.inf.uni-tuebingen.de/software/copycat/) v1.14 wraps around AxParafit & AxPcoords which are parallelized co-phylogenetics tools (http://sco.h-its.org/exelixis/software.html) ...
written 5.6 years ago by Hanif Khalak1.2k
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Answer: A: Validity Of Gene List Comparisons For Lists Originating From Different Platforms
... Multivariate vs. Meta Analysis Using gene list overlap to address repeatability with "replicates" across platform doesn't strike me as the best way to go about it. The lack of significant overlap between lists of genes means the "replicates" are not comparable, and so raises doubts about any meta-a ...
written 5.6 years ago by Hanif Khalak1.2k
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Comment: C: How [Much] Would You Spend For Bioinformatics Hpc Infrastructure With Iaas Capab
... Thanks for the very relevant point re: denovo assembly - I've gotten similar recommendations re: big RAM. Re: GPU, I've also been told the 16-GPU chassis is not practical or proven in the field; however, GPGPU is not a side-story anymore, and for research purposes, especially image analysis, it's s ...
written 5.7 years ago by Hanif Khalak1.2k
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Comment: C: Identification Of Genomic Regions Where Multiple Tf Binds.
... @Ian: I like a good Perl hack myself - still, interval logic is best dealt with through a library/module. It's not quite as sinister as regex for XML, but I've tried it from scratch and there are a number of gotchas that make anything quick/throw-away prone to error ...
written 5.7 years ago by Hanif Khalak1.2k
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Answer: A: Identification Of Genomic Regions Where Multiple Tf Binds.
... Several previous BioStar entries address the basic "overlapping intervals" problem: Finding an genomic intervals shared for a given individual as called by two or more algorithms What is the best library for handling interval logic? Fast interval intersection methodologies Quick programming ...
written 5.7 years ago by Hanif Khalak1.2k
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Comment: C: How [Much] Would You Spend For Bioinformatics Hpc Infrastructure With Iaas Capab
... Thanks for the valuable input - I agree with the hiring recommendation, though that's separate accounting. The big [shared] memory nodes are indeed a part of the requirement; fortunately, several vendors (see my answer) now have options that don't totally break the budget ...
written 5.7 years ago by Hanif Khalak1.2k
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Comment: C: How [Much] Would You Spend For Bioinformatics Hpc Infrastructure With Iaas Capab
... Thanks for the tip - for my own build-up/out, I'm working with an integrator; they could go with PSSC as OEM ...
written 5.7 years ago by Hanif Khalak1.2k
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Comment: C: How [Much] Would You Spend For Bioinformatics Hpc Infrastructure With Iaas Capab
... The 10-20% for power and 15% for S&M seems reasonable - the 2-CPU nodes are a bit thin for big data requirements, though ...
written 5.7 years ago by Hanif Khalak1.2k
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Comment: C: How [Much] Would You Spend For Bioinformatics Hpc Infrastructure With Iaas Capab
... Thanks for the detailed and helpful input - I'm still digesting various suggestions re: the storage options, esp. for medium-range solution. BTW, PSSC labs looks very interesting - their workstation is only 8-slot I've seen other than CX1(?). ...
written 5.7 years ago by Hanif Khalak1.2k

Latest awards to Hanif Khalak

Supporter 3.6 years ago, voted at least 25 times.
Guru 3.6 years ago, received more than 100 upvotes.
Voter 3.6 years ago, voted more than 100 times.
Teacher 5.7 years ago, created an answer with at least 3 up-votes. For A: Identification Of Genomic Regions Where Multiple Tf Binds.
Student 5.7 years ago, asked a question with at least 3 up-votes. For How [Much] Would You Spend For Bioinformatics Hpc Infrastructure With Iaas Capability?
Teacher 6.4 years ago, created an answer with at least 3 up-votes. For A: Find The Extent Of A Peak In A Manhattan Plot
Student 6.7 years ago, asked a question with at least 3 up-votes. For Estimating Ld Blocks
Popular Question 6.7 years ago, created a question with more than 1,000 views. For Estimating Ld Blocks
Teacher 6.9 years ago, created an answer with at least 3 up-votes. For A: How To Remove The Same Sequences In The Fasta Files?
Teacher 6.9 years ago, created an answer with at least 3 up-votes. For A: How To Find Sequences With A Given Number Of Mismatches
Teacher 6.9 years ago, created an answer with at least 3 up-votes. For A: Cyrillic: Exporting To A Vectorial Format
Teacher 7.2 years ago, created an answer with at least 3 up-votes. For A: Recommend Your Favorite Introductory "R In Bioinformatics" Books And Resources
Good Answer 7.3 years ago, created an answer that was upvoted at least 5 times. For A: Linkage With Whole Exome Data
Appreciated 7.3 years ago, created a post with more than 5 votes. For A: Linkage With Whole Exome Data
Teacher 7.3 years ago, created an answer with at least 3 up-votes. For A: Linkage With Whole Exome Data
Teacher 7.3 years ago, created an answer with at least 3 up-votes. For A: How To Parse Fasta Files In Perl
Student 7.3 years ago, asked a question with at least 3 up-votes. For Parallel Phylogenetic Tree Generation
Appreciated 7.3 years ago, created a post with more than 5 votes. For Parallel Phylogenetic Tree Generation
Popular Question 7.3 years ago, created a question with more than 1,000 views. For Parallel Phylogenetic Tree Generation
Teacher 7.3 years ago, created an answer with at least 3 up-votes. For A: Bioinformaticist Vs. Bioinformatician
Teacher 7.3 years ago, created an answer with at least 3 up-votes. For A: Regarding Datamining/Knowledge Based Algorithm
Teacher 7.3 years ago, created an answer with at least 3 up-votes. For A: Data Mining In Microarray

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