User: Peter Kovac

gravatar for Peter Kovac
Peter Kovac60
Reputation:
60
Status:
New User
Location:
Bratislava, Slovakia
Website:
http://www.fotopriesto...
Last seen:
6 years, 4 months ago
Joined:
8 years, 5 months ago
Email:
p***********@gmail.com

I used to be a student of computer science with interest in bioinformatics. http://compbio.fmph.uniba.sk/

Posts by Peter Kovac

<prev • 8 results • page 1 of 1 • next >
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Comment: C: Which Tools Perform Multiple Sequence Ungapped Alignment
... hm, there is an issue with the URL, the correct link is A: Analysis of a conserved motif across a phylum ...
written 7.0 years ago by Peter Kovac60
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Answer: A: Which Tools Perform Multiple Sequence Ungapped Alignment
... I'm not sure if there is a tool that will suit specifically to your situation, but you can find useful links to various MSA tools in one of my older answers: A: Analysis of a conserved motif across a phylum ...
written 7.0 years ago by Peter Kovac60 • updated 7.0 years ago by Istvan Albert ♦♦ 83k
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Answer: A: Analysis Of A Conserved Motif Across A Phylum
... Have you tried multiple sequence alignment? The most popular programs for MSA are ClustalW, T-COFFEE, MAFFT, Muscle. You can access them at the EBI site. But there's more, for example ProbCons. If you are really interested in which one best suits your needs, search PubMed. The output of MSA is exact ...
written 8.0 years ago by Peter Kovac60
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Answer: A: Best Free Text Editor For All Popular Languages (R, Python, Perl Etc..)
... PSPad is very good freeware editor for Windows. It has an extension for R, as well as syntax highlighting for many languages with highlighted export to RTF and HTML, macros, and an integrated FTP client. And for the Linux: Gnome based distros usually go with gedit included. gedit has many standard t ...
written 8.1 years ago by Peter Kovac60
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Answer: A: Problem In Translating Nucleotide To Protein
... Can you be more specific about the gene (which organism etc.)? If there is some reference sequence for the organism, I'd try to make an alignment and look for possible frameshifts (if there is no reference sequence you can try ortholog alignment with similar species). ...
written 8.1 years ago by Peter Kovac60
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Answer: A: Finding Motif Representation Of A Given Secondary Structure Of Rna Sequence
... Our lab has developed RNArobo, maybe it can help you. RNArobo is an RNA structural motif search tool. RNArobo can search sequence databases in FASTA format for a motif defined by a descriptor, which can specify primary and secondary structure constraints. ... RNArobo enables you to allow nucleot ...
written 8.1 years ago by Peter Kovac60
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Answer: A: Gap Continuation Penalty With Dynamic Programming ?
... If you can read Java code, here is a clear implementation of affine gap scores for the Needleman-Wunsch algorithm (and some other versions too). You can find more material on the author's site. That implementation comes straightforward from explanations in the Biological sequence analysis textbook. ...
written 8.1 years ago by Peter Kovac60
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Comment: C: Cufflinks Not Able To Assemble Transcripts In High Read Coverage
... Can you be more specific on "cufflinks or scripture is not able to assemble a transcript"? ...
written 8.4 years ago by Peter Kovac60

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