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User can download “fetchChromSizes” from http://hgdownload.cse.ucsc.edu/admin/exe/ #Chr #Genome #Download

The Start-up Research Grant (SRG) scheme aims to assist researchers to initiate their research career in a new institution. It is a two-year grant meant to enable researchers working in frontier areas of science and engineering to establish...

MEC, to identify and correct misassemblies in contigs. Firstly, MEC takes fragment coverage as the feature to detect the candidate misassemblies. Then, it can distinguish a large number of false positives from the candidate misassemblies based on...

Tadpole is a kmer-based assembler, with additional capabilities of error-correcting and extending reads. It does not do any complicated graph analysis or scaffolding, and therefore, is not particularly good for diploid organisms. Tadpole is...

We produce trimmed and error-corrected reads that result in assemblies with longer contigs and fewer errors. We compared QuorUM against several published error correctors and found that it is the best performer in most metrics we use. QuorUM is...

Musket is a well-established leading next-generation sequencing read error correction algorithm targetting Illumina sequencing. This corrector employs the k-mer spectrum approach and introduces three correction techniques in a multistage...

Rcorrector has an accuracy higher than or comparable to existing methods, including the only other method (SEECER) designed for RNA-seq reads, and is more time and memory efficient. With a 5 GB memory footprint for 100 million reads, it can be run...

CBI teams at GenBank®, the Sequence Read Archive (SRA), NCBI Virus, and BLAST continue to rapidly process and release data associated with this outbreak as it becomes available.  We also have a dedicated BLAST search page for...

The transition to the new default database version, dbV5, for BLAST+ is now complete.  For more details please see Blog. Team also uploaded a 2019-nCoV Sequences (Wuhan coronavirus) database to our FTP site, labeled...

Eye catchy graphs https://bl.ocks.org/ #JS #Java #Scripts

#Nanopore GPU #basecalling using# GUPPY on #UBUNTU 18.04 and @nvidia docker v2 with a RTX 2080 @kepler_00/nanopore-gpu-basecalling-using-guppy-on-ubuntu-18-04-and-nvidia-docker-v2-w" rel="nofollow">https://medium.com/@kepler_00/nanopore-gpu-basecalling-using-guppy-on-ubuntu-18-04-and-nvidia-docker-v2-w

Porechop is a tool for finding and removing adapters from Oxford Nanopore reads. Adapters on the ends of reads are trimmed off, and when a read has an adapter in its middle, it is treated as chimeric and chopped into separate reads....

wget https://github.com/philres/ngmlr/releases/download/v0.2.7/ngmlr-0.2.7-linux-x86_64.tar.gz--2020-02-03 11:05:58--  https://github.com/philres/ngmlr/releases/download/v0.2.7/ngmlr-0.2.7-linux-x86_64.tar.gzResolving github.com (github.com)......

DMINDA (DNA motif identification and analyses) is an integrated web server for DNA motif identification and analyses More at http://bmbl.sdstate.edu/DMINDA2/ https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4086085/