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Abhi on LoReTTA, a user-friendly tool for assembling viral genomes from PacBio sequence data (209 days ago): Detail paper here https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8111061/- BioStar on Perl Module Installation (666 days ago): To install BioPerl on a macOS system, you can follow these steps: Open the...
- Abhi on CovCal: Coverage / Read Count Calculator (827 days ago): Sequencing coverage is defined as the average number of reads that covers...
- Neel on CheckM:Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes (879 days ago): MOre at https://bitbucket.org/berkeleylab/checkv/src/master/
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radar charts with ggplot2
By Rahul Nayak 1935 days agogithub.com - ggradar allows you to build radar charts with ggplot2. This package is based on Paul Williamson’s code, with new aesthetics and compatibility with ggplot2 2.0. It was inspired by d3radaR, an htmlwidget built...chromoMap-An R package for Interactive Visualization and Annotation of Chromosomes
By Jit 1945 days ago Comments (1)cran.r-project.org - chromoMap provides interactive, configurable and elegant graphics visualization of chromosomes or chromosomal regions allowing users to map chromosome elements (like genes,SNPs etc.) on the chromosome plot.Each chromosome is composed of...TwinBLAST: When Two Is Better than One
By Jit 1945 days agogithub.com - TwinBLAST is a web-based tool for viewing 2 BLAST reports simultaneouslyside-by-side. It uses ExtJS (www.sencha.com/products/extjs/) to provide 2independently scrollable panels. BioPerl (www.bioperl.org) is used to indexraw BLAST reports and...Integrative Meta-Assembly Pipeline (IMAP): Chromosome-level genome assembler combining multiple de...
By Jit 1952 days agojournals.plos.org - Chromosome-level genome assembler combining multiple de novo assemblies https://github.com/jkimlab/IMAPITIS: the Integrated Taxonomic Information System!
By Jit 1953 days agohttps://www.itis.gov/ - 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,...Retrieving Taxonomic Information with R
By Rahul Nayak 1955 days ago Comments (2)cran.r-project.org - 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...Apollo: a sequence annotation editor
By Abhimanyu Singh 1956 days agogenomebiology.biomedcentral.com - 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...LRSDAY: Long-read Sequencing Data Analysis for Yeasts
By Poonam Mahapatra 1957 days agogithub.com - 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
By Poonam Mahapatra 1957 days agowww.littlest.co.uk - 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 : a program for the annotation of mitochondrial and plastid genomes
By Jit 1957 days agogithub.com - 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...
