User: Csaba Kerepesi

gravatar for Csaba Kerepesi
Reputation:
320
Status:
Trusted
Location:
Hungary
Website:
http://kerepesi.web.el...
Twitter:
CsabaKerepesi
Scholar ID:
Google Scholar Page
Last seen:
3 weeks, 5 days ago
Joined:
4 years, 9 months ago
Email:
k*********@gmail.com

I am a mathematician research associate at MTA SZTAKI. My research interest is bioinformatics, particularly mathematical immunology and metagenomics analysis and ageing.

I have developed the metagenomic analysis tool AmphoraNet which is the webserver implementation of AMPHORA2 and AmphoraVizu which can visualize outputs generated by AMPHORA2 and AmphoraNet.

I am the creator of the Budapest Reference Connectome and the Giant Virus Finder.

Posts by Csaba Kerepesi

<prev • 23 results • page 1 of 3 • next >
0
votes
1
answer
1.4k
views
1
answers
Answer: A: Giant Virus Finder - discover giant virus sequences in metagenomes
... [Giant Virus Toplist][1] is updated. It is interesting that the number of giant viruses (more exactly: the viruses having a genome sequence larger than 300000 bp) almost doubled over the last three years. The leader is still Pandoravirus salinus with 2.47 million bp, but there are new members in the ...
written 4 months ago by Csaba Kerepesi320 • updated 4 weeks ago by RamRS18k
0
votes
1
answer
1.4k
views
1
answers
Comment: C: Giant Virus Finder - discover giant virus sequences in metagenomes
... I have updated the Giant Virus Toplist, and the input file of the Giant Virus Finder. The problem was caused by the structures of the data were changed in Entrez/Biopython, but now I've fixed the problem, and update the scripts (TopGiantsEntrez.py and TopGiants.pl). ...
written 4 months ago by Csaba Kerepesi320
0
votes
1
answer
1.4k
views
1
answers
Comment: A: Giant Virus Finder - discover giant virus sequences in metagenomes
... If you want to create a new Giant Virus Toplist by "TopgiantsEntrez.py", you need to install Biopython 1.5 or later. For more details please check the [README file of Giant Virus Finder][1]. However, if you want to use the Giant Virus Toplist published by us, you do not need to install Biopython a ...
written 7 months ago by Csaba Kerepesi320
0
votes
1
answer
1.4k
views
1
answers
Comment: C: Giant Virus Finder - discover giant virus sequences in metagenomes
... thank you for your comment. As I know Giant Virus Finder has not been available via Galaxy, yet. I am going to send an email to Galaxy support asking them about this issue. ...
written 7 months ago by Csaba Kerepesi320
5
votes
1
answer
1.4k
views
1
answer
Tool: Giant Virus Finder - discover giant virus sequences in metagenomes
... We have developed a pipeline tool to find giant virus sequences in metagenomes. It called Giant Virus Finder and are available from the site of our group: [Giant Virus Finder][1]. This is the only tool specialized to find giant viruses. Using it we have found giant virus sequences in metagenomes sa ...
tools written 2.6 years ago by Csaba Kerepesi320 • updated 27 days ago by RamRS18k
0
votes
3
answers
1.2k
views
3
answers
Answer: A: Getting species name after doing blastx?
... You can use MEGAN5 to process the blastx result file: http://ab.inf.uni-tuebingen.de/software/megan5/ It can work from gi numbers and displays taxids and scientific names. Alternatively if you want to write some scripts here are the mapping files: ftp://ftp.ncbi.nlm.nih.gov/pub/taxonomy/ (check the ...
written 3.3 years ago by Csaba Kerepesi320
0
votes
1
answer
2.2k
views
1
answers
Comment: C: Budapest Reference Connectome: a 3D visualization tool to browse connections in
... Thank you! Here is a new article of our research group (without me) about the differences of the connections between women's brains and men's brains: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0130045 ...
written 3.3 years ago by Csaba Kerepesi320
2
votes
1
answer
2.2k
views
1
answer
Tool: Budapest Reference Connectome: a 3D visualization tool to browse connections in the human brain
... I am pleased to announce a new tool in neuroscience (connectomics): Budapest Reference Connectome a 3D visualization tool to browse connections in the human (consensus) brain. The connectome has 1015 nodes, but those corresponding to the same larger cerebral area are drawn at the same spot, for a c ...
connectome neuroscience tool brain written 3.4 years ago by Csaba Kerepesi320 • updated 3.4 years ago by Mary11k
0
votes
2
answers
1.5k
views
2
answers
Answer: A: pairwise comparison local BLAST
... Use the -subject option. But it will be faster if you generate database for each sequences. Furthermore I recommend use as low word size (-word_size) as you can. Default word size of blastn (megablast) is 28 which may be too high for your purpose. ...
written 3.5 years ago by Csaba Kerepesi320
0
votes
1
answer
6.1k
views
1
answers
Comment: C: Why does the BLAST use E-value instead of p-value?
... Exactly: BLAST P-value: "The probability of a chance alignment occurring with a particular score or a better score in a database search." Quoted form BLAST Glossary More exactly: If you have an n length query sequence and an m length database and running BLAST you get a hit with S score, than the ...
written 3.5 years ago by Csaba Kerepesi320

Latest awards to Csaba Kerepesi

Popular Question 6 months ago, created a question with more than 1,000 views. For Giant Virus Finder - discover giant virus sequences in metagenomes
Appreciated 3.5 years ago, created a post with more than 5 votes. For A: Why does the BLAST use E-value instead of p-value?
Good Answer 3.5 years ago, created an answer that was upvoted at least 5 times. For A: Why does the BLAST use E-value instead of p-value?
Scholar 3.5 years ago, created an answer that has been accepted. For A: Why does the BLAST use E-value instead of p-value?
Teacher 3.5 years ago, created an answer with at least 3 up-votes. For A: How Did You Learn Good Practice In Bioinformatics/Computational Biology?
Teacher 4.5 years ago, created an answer with at least 3 up-votes. For A: How Did You Learn Good Practice In Bioinformatics/Computational Biology?
Teacher 4.5 years ago, created an answer with at least 3 up-votes. For A: Tools For Metagenomic Data Analysis
Autobiographer 4.5 years ago, has more than 80 characters in the information field of the user's profile.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 780 users visited in the last hour