PMID- 34844379
OWN - NLM
STAT- PubMed-not-MEDLINE
LR  - 20211130
IS  - 1096-0031 (Electronic)
IS  - 0748-3007 (Linking)
VI  - 28
IP  - 5
DP  - 2012 Oct
TI  - GB-to-TNT: facilitating creation of matrices from GenBank and diagnosis of 
      results in TNT.
PG  - 503-513
LID - 10.1111/j.1096-0031.2012.00400.x [doi]
AB  - This paper presents a pipeline, implemented in an open-source program called 
      GB-->TNT (GenBank-to-TNT), for creating large molecular matrices, starting from 
      GenBank files and finishing with TNT matrices which incorporate taxonomic 
      information in the terminal names. GB-->TNT is designed to retrieve a defined 
      genomic region from a bulk of sequences included in a GenBank file. The user 
      defines the genomic region to be retrieved and several filters (genome, length of 
      the sequence, taxonomic group, etc.); each genomic region represents a different 
      data block in the final TNT matrix. GB-->TNT first generates Fasta files from the 
      input GenBank files, then creates an alignment for each of those (by calling an 
      alignment program), and finally merges all the aligned files into a single TNT 
      matrix. The new version of TNT can make use of the taxonomic information 
      contained in the terminal names, allowing easy diagnosis of results, evaluation 
      of fit between the trees and the taxonomy, and automatic labelling or colouring 
      of tree branches with the taxonomic groups they represent. (c) The Willi Hennig 
      Society 2012.
CI  - (c) The Willi Hennig Society 2012.
FAU - Goloboff, Pablo A
AU  - Goloboff PA
AD  - Consejo Nacional de Investigaciones Cientificas y Tecnicas, Miguel Lillo 205, 
      4000 S.M. de Tucuman, Argentina.
AD  - Instituto Miguel Lillo, Facultad de Ciencias Naturales, Miguel Lillo 205, 4000 
      S.M. de Tucuman, Argentina.
FAU - Catalano, Santiago A
AU  - Catalano SA
AD  - Consejo Nacional de Investigaciones Cientificas y Tecnicas, Miguel Lillo 205, 
      4000 S.M. de Tucuman, Argentina.
AD  - Fundacion Miguel Lillo, Miguel Lillo 251, 4000 S.M. de Tucuman, Argentina.
LA  - eng
SI  - GENBANK/DQ53206
PT  - Journal Article
DEP - 20120504
PL  - United States
TA  - Cladistics
JT  - Cladistics : the international journal of the Willi Hennig Society
JID - 9881057
SB  - IM
EDAT- 2012/10/01 00:00
MHDA- 2012/10/01 00:01
CRDT- 2021/11/30 01:04
PHST- 2021/11/30 01:04 [entrez]
PHST- 2012/10/01 00:00 [pubmed]
PHST- 2012/10/01 00:01 [medline]
AID - 10.1111/j.1096-0031.2012.00400.x [doi]
PST - ppublish
SO  - Cladistics. 2012 Oct;28(5):503-513. doi: 10.1111/j.1096-0031.2012.00400.x. Epub 
      2012 May 4.