User: Burlappsack

gravatar for Burlappsack
Burlappsack650
Reputation:
650
Status:
New User
Location:
Last seen:
4 years, 9 months ago
Joined:
7 years, 4 months ago
Email:
a***********@gmail.com

Research Interests: Protein-protein binding site prediction software with Perl, Java, and R.

Gene Annotation.

Next generation sequencing.

Posts by Burlappsack

<prev • 42 results • page 1 of 5 • next >
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Blast Nucleotide Vs. Nucleotide, Plus-Minus Results Only
... Hi Folks, I am interested in running a blastn search to search for complementary sequence (potential biological function) between two groups of sequences, (Query blasted against Reference) such that the query is complementary to the minus strand of the reference. With blastall v. 2.2.14 installed o ...
blast written 6.0 years ago by Burlappsack650 • updated 6.0 years ago by Istvan Albert ♦♦ 77k
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Comment: C: How Does A Bioinformatics Scientist Document His/Her Work?
... Yes, I did this for my lab and it is very popular. ...
written 6.2 years ago by Burlappsack650
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Gene Annotation By Protein Domain Match Criteria
... Hello, I am working on the problem of annotating the members of gene families in recently sequenced genomes, where the transcripts have been determined. Is there a tool that will let me decompose my query sequence into domains, then rank the results based off inclusion of those domains? For exampl ...
gene prediction next-gen written 6.3 years ago by Burlappsack650 • updated 6.3 years ago by Lee Katz2.9k
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Answer: A: Best Free Text Editor For All Popular Languages (R, Python, Perl Etc..)
... I have been getting great mileage with vi, covering all my text writing and a good deal of reading as well. It's available on almost all Unix/Linux machines, and I'm sure there is a port to Cygwin out there. ...
written 6.4 years ago by Burlappsack650
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Comment: C: Bioinformatics Tutorials Utilizing The Go ( Of Google Fame ) Programming Languag
... I have been asking myself similar questions on the "next best" language for bioinformatics. Recently I have taken an interest in clojure, with lisp syntax(write efficient code), full java interlope (use existing libraries) and a software transactional memory(great concurrency support) I think it mi ...
written 6.7 years ago by Burlappsack650
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Comment: C: Cd-Hit-Est-2D Segmentation Fault
... yes, good idea. I have had to download previous versions of software to work around bugs. As long as the features are the same you should be fine. ...
written 6.7 years ago by Burlappsack650
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Answer: A: Cd-Hit-Est-2D Segmentation Fault
... Hello, If you've already increased the stack size and you are still getting a seg fault, you really need to find cd-hi-classic-c++ and make the suggested change. If you are having trouble locating the file(I had this problem today) might I suggest the find command? ...
written 6.8 years ago by Burlappsack650
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Answer: A: Are There Any Molecular Biology Movies - Like That Of Attenborough'S "Life Serie
... Does Gattaca count? ...
written 6.8 years ago by Burlappsack650
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Tools To Identify Binding Pockets By Geometry
... Hello, I am interested in determining concave regions of a protein with the assumption that these are possible binding sites. Has anyone had any success using these determinations, if so, what program did you find useful? So far I have found Ligsite, Surfnet, PocketFinder, & qSiteFinder, but wo ...
binding structural written 6.8 years ago by Burlappsack650 • updated 2.5 years ago by Biostar ♦♦ 20
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5 follow
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Alternative To Wise2: Other Packages For Mapping Proteins To Genomic And Cdna Sequence Data.
... Hello, I am trying to map a handful of proteins from one species, to the genomic & cDNA sequence of another. I am using the wise2 package, genewiseDB & estwiseDB, for genomic/cdna respectively, and the result is a list of possibly matches and score, their alignments, and a generated cDNA s ...
cdna protein genomics written 6.9 years ago by Burlappsack650 • updated 6.9 years ago by Lhl730

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