Latest comments
Abhi on LoReTTA, a user-friendly tool for assembling viral genomes from PacBio sequence data (201 days ago): Detail paper here https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8111061/- BioStar on Perl Module Installation (657 days ago): To install BioPerl on a macOS system, you can follow these steps: Open the...
- Abhi on CovCal: Coverage / Read Count Calculator (818 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 (871 days ago): MOre at https://bitbucket.org/berkeleylab/checkv/src/master/
Tag cloud
Bioinformatics, Genome, NGS, assembly, Analysis, tool, reads, Sequencing, Data, alignment, Sequence, Visualization, R, Pipeline, Computational Biology, Genomics, genomes, Annotation, Long, Tools, Tutorial, Software, Fast, Gene, DNA, Plot, sequences, Genomic, Assemblies, PacBio, Package, Assembler, de novo, Synteny, Learn, read, Chromosome, accurate, Interactive, Perl, nanopore, genes, Program, Web, Scaffolding, Database, Server, Python, Mapping, Comparative
Our Sponsors
All site bookmarks
Pango Lineage Analysis !
By Abhi 1137 days agocov-lineages.org - The Pango nomenclature is being used by researchers and public health agencies worldwide to track the transmission and spread of SARS-CoV-2, including variants of concern. This website documents all current Pango lineages and their spread, as well...Apache server setting !
By Abhi 1154 days agoubuntu.com - Apache is an open source web server that’s available for Linux servers free of charge. In this tutorial we’ll be going through the steps of setting up an Apache server. What you’ll learn How to set up Apache Some basic Apache...Understanding pango networks !
By Abhi 1167 days agowww.pango.network - In the vast majority of instances it is expected that Pango lineage names and designations will conform to the following rules. These rules also act as guidelines for the decisions made by the Lineage Designation...UPGMA Worked Example
By Abhi 1170 days agowww.slimsuite.unsw.edu.au - The tabs below include a walkthrough of clustering 7 biological sequences (A-G) using the Unweighted Pair-Group Method with Arithmetic mean (UPGMA) method. Note that UPGMA is actually a generic method and thus the walkthrough could apply to any...Introduction to phylogenies in R
By Abhi 1170 days agowww.phytools.org - R phylogenetics is built on the contributed packages for phylogenetics in R, and there are many such packages. Let's begin today by installing a few critical packages, such as ape, phangorn, phytools, and geiger. To get the most recent CRAN version...RNA-seq workflow: gene-level exploratory analysis and differential expression
By Jit 1174 days agomaster.bioconductor.org - Here we walk through an end-to-end gene-level RNA-seq differential expression workflow using Bioconductor packages. We will start from the FASTQ files, show how these were quantified to the reference transcripts, and prepare gene-level count...PaReBrick: PArallel REarrangements and BReaks identification toolkit
By Jit 1175 days agogithub.com - PaReBrick. The tool takes a collection of strains represented as a sequence of oriented synteny blocks and a phylogenetic tree as input data. It identifies rearrangements, tests them for consistency with a tree, and sorts the events by their...MMseqs2: ultra fast and sensitive sequence search and clustering suite
By Abhi 1177 days agogithub.com - MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin)...Code Golf
By Abhi 1177 days agohttps://code.golf/ - Code Golf is a game designed to let you show off your code-fu by solving problems in the least number of characters. Since this is your first time here, I suggest starting with something simple like Fizz Buzz.OGDRAW - Draw Organelle Genome Maps
By Abhi 1178 days agochlorobox.mpimp-golm.mpg.de - OrganellarGenomeDRAW converts annotations in the GenBank or EMBL/ENA format into graphical maps. The input has to be a GenBank or EMBL/ENA flat file wherase the output can vary among several types of files....
