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P5-bio-db-embl
Jul 20, 2023
Database object interface for EMBL entry retrieval
BioDBEMBL allows the dynamic retrieval of sequence objects BioSeq from the EMBL database using the dbfetch script at EBI.
In order to make changes transparent we have host type currently only ebi and location defaults to ebi separated out. This allows later additions of more servers in different geographical locations.
The functionality of this module is inherited from BioDBDBFetch which implements BioDBWebDBSeqI.
Checkout these related ports:
- Wise - Intelligent algorithms for DNA searches
- Wfa2-lib - Exact gap-affine algorithm using homology to accelerate alignment
- Vt - Discovers short variants from Next Generation Sequencing data
- Vsearch - Versatile open-source tool for metagenomics
- Viennarna - Alignment tools for the structural analysis of RNA
- Velvet - Sequence assembler for very short reads
- Vcftools - Tools for working with VCF genomics files
- Vcflib - C++ library and CLI tools for parsing and manipulating VCF files
- Vcf2hap - Generate .hap file from VCF for haplohseq
- Vcf-split - Split a multi-sample VCF into single-sample VCFs
- Unikmer - Toolkit for nucleic acid k-mer analysis, set operations on k-mers
- Unanimity - Pacific Biosciences consensus library and applications
- Ugene - Integrated bioinformatics toolkit
- Ucsc-userapps - Command line tools from the UCSC Genome Browser project
- Trimmomatic - Flexible read trimming tool for Illumina NGS data