Codetta: predicting the genetic code from nucleotide sequence-Reference-Cited by-同舟云学术

Codetta: predicting the genetic code from nucleotide sequence

Published:2022-12-13 Issue:1 Volume:39 Page:
ISSN:1367-4811
Container-title:Bioinformatics
language:en
Short-container-title:

Author:

Shulgina Yekaterina¹^ORCID,Eddy Sean R¹²^ORCID

Affiliation:

1. Department of Molecular and Cellular Biology, Harvard University , Cambridge, MA 02138, USA

2. Howard Hughes Medical Institute, Harvard University , Cambridge, MA 02138, USA

Abstract

Abstract Summary Codetta is a Python program for predicting the genetic code table of an organism from nucleotide sequences. Codetta can analyze an arbitrary nucleotide sequence and needs no sequence annotation or taxonomic placement. The most likely amino acid decoding for each of the 64 codons is inferred from alignments of profile hidden Markov models of conserved proteins to the input sequence. Availability and implementation Codetta 2.0 is implemented as a Python 3 program for MacOS and Linux and is available from http://eddylab.org/software/codetta/codetta2.tar.gz and at http://github.com/kshulgina/codetta. Supplementary information Supplementary data are available at Bioinformatics online.

Funder

National Institutes of Health

Howard Hughes Medical Institute

Publisher

Oxford University Press (OUP)

Subject

Computational Mathematics,Computational Theory and Mathematics,Computer Science Applications,Molecular Biology,Biochemistry,Statistics and Probability

Link

https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btac802/48001335/btac802.pdf

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