Rahul Agarwal
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Metagenomics role in antibiotic resistance
By Rahul Agarwal 3859 days agowww.landesbioscience.com - Related latest article: http://www.nature.com/nature/journal/v509/n7502/pdf/nature13377.pdfpoRe: an R package for the visualization and analysis of nanopore sequencing data
By Jit 2588 days ago Comments (1)academic.oup.com - Motivation: The Oxford Nanopore MinION device represents a unique sequencing technology. As a mobile sequencing device powered by the USB port of a laptop, the MinION has huge potential applications. To enable these applications, the...Ra assembler - a de novo DNA assembler for third generation sequencing data
By biogeek 2554 days agogithub.com - Integration of the Ra assembler - a de novo DNA assembler for third generation sequencing data developed on Faculty of Electrical Engineering and Computing (FER), Ruder Boskovic Institute (RBI) and Genome Institute of Singapore (GIS). Ra is in...Flye: Fast and accurate de novo assembler for single molecule sequencing reads
By Jit 2426 days agogithub.com - Flye is a de novo assembler for long and noisy reads, such as those produced by PacBio and Oxford Nanopore Technologies. The algorithm uses an A-Bruijn graph to find the overlaps between reads and does not require them to be error-corrected. After...Manta: rapid detection of structural variants and indels for germline and cancer sequencing...
By Jit 2402 days agogithub.com - Manta calls structural variants (SVs) and indels from mapped paired-end sequencing reads. It is optimized for analysis of germline variation in small sets of individuals and somatic variation in tumor/normal sample pairs. Manta discovers, assembles...gSearch: a fast and flexible general search tool for whole-genome sequencing
By Jit 2332 days agoml.ssu.ac.kr - gSearch compares sequence variants in the Genome Variation Format (GVF) or Variant Call Format (VCF) with a pre-compiled annotation or with variants in other genomes. Its search algorithms are subsequently optimized and implemented in a...SimLoRD: A read simulator for third generation sequencing reads
By Aaryan Lokwani 2316 days agobitbucket.org - SimLoRD is a read simulator for third generation sequencing reads and is currently focused on the Pacific Biosciences SMRT error model. Reads are simulated from both strands of a provided or randomly generated reference sequence. The reference...d2Tools: The toolbox for counting the frequency of k-tuple from sequencing datasets and calculate...
By Jit 2287 days agocode.google.com - d2Tools are the toolbox for counting the frequency of K-tuple from sequencing datasets and then calculating the pairwise dissimilarity matrix between samples with the d2-style(d2/d2*/d2S representing d2/d2Star/d2shepp, respectively)...sim3C: Read-pair simulation of 3C-based sequencing methodologies (HiC, Meta3C, DNase-HiC)
By Jit 2233 days agogithub.com - Required python modules biopython intervaltree numpy scipy tqdm PyYAMLNGS Platforms launched by BGI’s MGI Tech
By Jit 2176 days agoMGI, a subsidiary of global genomics leader BGI Group, announced pricing and its first early access customer for the new ultra high-throughput sequencer, MGISEQ-T7, saying it has driven down sequencing cost to $5 per gigabyte
