Tag: EMBL

EMBL2checklists 0.6 – Converts EMBL-formatted flatfiles to ENA Checklists

EMBL2checklists 0.6

:: DESCRIPTION

EMBL2checklists converts EMBL- or GenBank-formatted flat files to submission-ready checklists (i.e., tab-separated spreadsheets) for submission to ENA via the interactive Webin submission system.

::DEVELOPER

Michael Gruenstaeudl

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/ Linux / MacOs
  • Python

:: DOWNLOAD

EMBL2checklists

:: MORE INFORMATION

Citation

Gruenstaeudl M, Hartmaring Y.
EMBL2checklists: A Python package to facilitate the user-friendly submission of plant and fungal DNA barcoding sequences to ENA.
PLoS One. 2019 Jan 10;14(1):e0210347. doi: 10.1371/journal.pone.0210347. PMID: 30629718; PMCID: PMC6328100.

EmblEx 20121203 – Parse and Extract data from EMBL entries to various formats

EmblEx 20121203

:: DESCRIPTION

EmblEx (EMBL Extractor) is a software for molecular biologists and bioinformaticians. It consists of a series of perl scripts and makes use of a MySQL database. Using EmblEx is through a graphical interface within a web browser or through the command line under linux or windows.

::DEVELOPER

Virtual Biology Lab

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

 EmblEx

:: MORE INFORMATION

Genbank_to_Fasta 1.1 – Genbank/EMBL to FASTA Conversion Tool

Genbank_to_Fasta 1.1

:: DESCRIPTION

Genbank_to_Fasta is designed to accept a GenBank or EMBL format file, and convert it to a FASTA file. You have control over what kind of sequence gets extracted, and how the header line is written. Select a GenBank or EMBL format file to upload containing a feature table. Select the file format. Choose the delimiter characters that will separate the qualifiers from one another in the header line. Select whether to extract translated amino acid sequences, DNA sequence for each feature, or the entire DNA sequence of the whole record. To choose how your header line appears, designate the names of the qualifiers, one per field, in the order that you want them to appear in the FASTA header line.

::DEVELOPER

the Rocap lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/MacOsX / Windows
  • Python

:: DOWNLOAD

 Genbank_to_Fasta

:: MORE INFORMATION

Vector NTI Viewer 4.0.1 – Read DNA Sequence Data from GenBank, EMBL or FASTA files

Vector NTI Viewer 4.0.1

:: DESCRIPTION

Vector NTI Viewer, a freeware program, allows scientists to study and analyze biological molecules. It incorporates a small subset of functions from the much more sophisticated Vector NTI Suite software.Vector NTI Viewer can read Vector NTI Molecule Documents, and molecule data from GenBank, EMBL or FASTA files. You may also paste molecule descriptions in one of the above formats from the Clipboard. In addition, the Viewer can read plain nucleotide sequence data form ASCII file or the Clipboard, automatically creating a virtual annotated molecule for that nucleotide sequence.

::DEVELOPER

Life Technologies

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Macintosh

:: DOWNLOAD

Vector NTI Viewer

:: MORE INFORMATION

The Vector NTI Viewer is free.