User: Burlappsack
Burlappsack • 650
- Reputation:
- 650
- Status:
- New User
- Location:
- Last seen:
- 5 years, 2 months ago
- Joined:
- 7 years, 9 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
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• 42 results •
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2
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... 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 ...
written 6.4 years ago by
Burlappsack • 650
• updated
6.4 years ago by
Istvan Albert ♦♦ 78k
0
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11
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... Yes, I did this for my lab and it is very popular.
...
written 6.6 years ago by
Burlappsack • 650
2
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1
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1.2k
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1
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... 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 ...
written 6.7 years ago by
Burlappsack • 650
• updated
6.7 years ago by
Lee Katz • 2.9k
23
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21
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14k
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21
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... 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 6.9 years ago by
Burlappsack • 650
0
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4
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4.4k
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4
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... 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 7.1 years ago by
Burlappsack • 650
0
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2
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3.4k
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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 7.2 years ago by
Burlappsack • 650
0
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2
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3.4k
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2
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... 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 7.2 years ago by
Burlappsack • 650
0
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7
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4.4k
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7
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... Does Gattaca count? ...
written 7.2 years ago by
Burlappsack • 650
6
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2
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1.3k
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2
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... 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 ...
written 7.2 years ago by
Burlappsack • 650
• updated
2.9 years ago by
Biostar ♦♦ 20
6
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2
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2.1k
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5 follow
2
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... 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 ...
written 7.3 years ago by
Burlappsack • 650
• updated
7.3 years ago by
Lhl • 730
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