Rahul Agarwal
I'm a Bioinformatician and Programmer
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Biggest Human Brain Project (HBP) launched!!!
By Rahul Agarwal 4644 days ago"The Human Brain Project’s is consists of 130 research institutions throughout Europe and coordinated through the Ecole polytechnique fédérale de Lausanne (EFPL)"BFC: a standalone high-performance tool for correcting sequencing errors from Illumina sequencing...
By Jit 2947 days agogithub.com - BFC is a standalone high-performance tool for correcting sequencing errors from Illumina sequencing data. It is specifically designed for high-coverage whole-genome human data, though also performs well for small genomes. The BFC algorithm is a...Flye: Fast and accurate de novo assembler for single molecule sequencing reads
By BioJoker 2641 days agogithub.com - Flye is a de novo assembler for single molecule sequencing reads, such as those produced by PacBio and Oxford Nanopore Technologies. It is designed for a wide range of datasets, from small bacterial projects to large mammalian-scale assemblies. The...mosdepth: fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
By Jit 2416 days agogithub.com - mosdepth can output: per-base depth about 2x as fast samtools depth--about 25 minutes of CPU time for a 30X genome.mean per-window depth given a window size--as would be used for CNV calling.the mean per-region given a BED file of regions.a...FastGT: an alignment-free method for calling common SNVs directly from raw sequencing reads
By Jit 2341 days agobioinfo.ut.ee - FastGT is a program package for whole-genome genotyping of genome variants directly from raw sequencing reads. It is written in C and runs in Linux. FastGT uses a list of variant-specific k-mer pairs that are unique in human genome, counts the...HASLR: a hybrid assembler which uses both second and third generation sequencing reads
By BioStar 2244 days agogithub.com - HASLR, a hybrid assembler which uses both second and third generation sequencing reads to efficiently generate accurate genome assemblies. Our experiments show that HASLR is not only the fastest assembler but also the one with the lowest number of...Ktrim: an extra-fast and accurate adapter- and quality-trimmer for sequencing data
By Jit 1960 days agogithub.com - Ktrim is written in C++ for GNU Linux/Unix platforms. After uncompressing the source package, you can find an executable file ktrim under bin/ directory compiled using g++ v4.8.5 and linked with libz...
Is reference genome necessary for gene expression study in transcriptome sequencing or for variant discovery in genome sequencing?
Rahul Agarwal 4726 days ago320000 viruses in mammals yet to sequenced in future!!!
By Rahul Agarwal 4678 days ago70 per cent of emerging viral diseases such as HIV/AIDS, West Nile, Ebola, SARS, and influenza, are zoonoses - infections of animals that cross into humans.
