Jit
Enthusiast computational biologist with business dream !!!
Our Sponsors
Related items
GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
By Jit 2758 days agogithub.com - GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/ncomms11307.htmlFeatures Mapping position agnostic to alignment parameters. ...COSINE: non-seeding method for mapping long noisy sequences
By Jit 2252 days agogithub.com - Third generation sequencing (TGS) are highly promising technologies but the long and noisy reads from TGS are difficult to align using existing algorithms. Here, we present COSINE, a conceptually new method designed specifically for aligning long...LRCstats: Long Read Correction Statistics
By Jit 2546 days agogithub.com - LRCstats is an open-source pipeline for benchmarking DNA long read correction algorithms for long reads outputted by third generation sequencing technology such as machines produced by Pacific Biosciences. The reads produced by third generation...LSC: Improving PacBio Long Read Accuracy by Short Read Alignment
By Abhimanyu Singh 2301 days agowww.healthcare.uiowa.edu - Added Command line argument support. Multi-stage execution modes. Support for parallelization. Now execution proceeds in batches of long reads the size of which can be set by --long_read_batch_size N. Better compressed intermediate files. Added...List of bioinformatics packages for NGS analysis !
By Rahul Nayak 1376 days agoPackage suites gather software packages and installation tools for specific languages or platforms. We have some for bioinformatics software.
SPAdes hybrid genome assembly
Last updated 2585 days ago by Jit Comments (1)When you have both Illumina and Nanopore data, then SPAdes remains a good option for hybrid assembly - SPAdes was used to produce the B fragilis assembly by Mick Watson’s group. Again, running spades.py will show you the...Converting a VCF into a FASTA given some reference !
By Jit 2350 days agoconverting a VCF file into a FASTA file given a reference sequenceLong read assembly workshop !
By Rahul Nayak 2273 days ago Comments (4)sepsis-omics.github.io - This is a tutorial for a workshop on long-read (PacBio) genome assembly. It demonstrates how to use long PacBio sequencing reads to assemble a bacterial genome, and includes additional steps for circularising, trimming, finding plasmids, and...Free Genomics data !
By BioStar 1782 days agowww.darwintreeoflife.org - The specimens were collected by the Oxford Wytham Woods and Edinburgh Lohse lab teams. DNA extraction and sequencing was carried out by the Sanger Institute Scientific Operations teams. Assemblies were carried out by the Tree of Life team (Shane...Software for genome assembly !
By LEGE 1578 days agoList of bioinformatics tools/Software Website References for genome assembly:
