BOL

Chromosome-level genome assembler combining multiple de novo assemblies https://github.com/jkimlab/IMAP

t/elink_llinks.t (Wstat: 512 Tests: 0 Failed: 0) Non-zero exit status: 2 Parse errors: Bad plan. You planned 84 tests but ran 0.t/elink_ncheck.t (Wstat: 512 Tests: 0 Failed: 0) Non-zero exit status: 2 Parse errors: Bad plan. You planned 58 tests but...

ITIS, the Integrated Taxonomic Information System! Here you will find authoritative taxonomic information on plants, animals, fungi, and microbes of North America and the world. We are a partnership of U.S., Canadian,...

Efficient R programming Colin Gillespie Robin Lovelace https://csgillespie.github.io/efficientR/ #Efficient #R #programming

Web scrapping https://www.r-bloggers.com/how-to-scrape-zomato-restaurants-data-in-r/ #Web #Scrapping #R

This could work as well  https://metacpan.org/pod/Bio::DB::Taxonomy

Perl solution to the problem  https://metacpan.org/pod/Bio::Taxon

This vignette will introduce users to the retrieval of taxonomic information with myTAI. The taxonomy() function implemented in myTAI relies on the powerful package taxize. Nevertheless, taxonomic information retrieval...

Tools publication at BMC Research Notes

The well-established inaccuracy of purely computational methods for annotating genome sequences necessitates an interactive tool to allow biological experts to refine these approximations by viewing and independently evaluating the data supporting...

Long-read sequencing technologies have become increasingly popular in genome projects due to their strengths in resolving complex genomic regions. As a leading model organism with small genome size and great biotechnological importance, the budding...

Miropeats discovers regions of sequence similarity amongst any set of DNA sequences and then presents this similarity information graphically. Sequence similarity searching is a very general tool that forms the basis of many different biological...

MFannot is a program for the annotation of mitochondrial and plastid genomes MFannot is a program for the annotation of mitochondrial and plastid genomes. It is a PERL wrapper around a set of diverse, external independent tools. It makes intense...

Gepard (German: "cheetah", Backronym for "GEnome PAir - Rapid Dotter") allows the calculation of dotplots even for large sequences like chromosomes or bacterial genomes. Reference: Krumsiek J, Arnold R, Rattei T. Gepard: A rapid and sensitive tool...

We have made changes the nr version 5 database, (nr_v5), to facilitate better search results and improved performance by reducing the number of redundant titles in the nr_v5 database used by webBLAST, which is also available for BLAST+ users.

Alignment-free sequence comparison: benefits, applications, and tools https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1319-7 #Alignment #Sequence

Software tools for visualizing Hi-C data https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1161-y #HiC #3C

The pipeline is open-source and hosted in a public Bitbucket repository. TRITEX has been run on highly inbred genotypes of barley (Hordeum vulgare), tetraploid wheat (Triticum turgidum) and hexaploid wheat (T. aestivum) with reasonable...