Neel
Bioinformatics Beginner
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Hercules: a profile HMM-based hybrid error correction algorithm for long reads
By Jit 2290 days agogithub.com - Choosing whether to use second or third generation sequencing platforms can lead to trade-offs between accuracy and read length. Several studies require long and accurate reads including de novo assembly, fusion and structural variation detection....Professor/Associate Professor/ Assistant Professor at Chettinad Academy of Research and Education
OPEN FACULTY POSITION Chettinad Academy of Research and Education (CARE) invites applications from eligible and translational research-oriented candidates to the posts of Professor/Associate Professor/ Assistant Professor Computational Biology,...P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
By BioStar 2273 days agowww.fishbrowser.org - P_RNA_scaffolder is a novel scaffolding tool using Pair-end RNA-seq to scaffold genome fragments. The method is suitable for most genomes. The program could utilize Illumina Paired-end RNA-sequencing reads from target speciesies. Our method provides...The Minerva Research Group for Bioinformatics
The focus of the bioinformatics group is to use computational approaches to gain an insight into genome evolution in primates. http://www.eva.mpg.de/genetics/bioinformatics/overview.html?Fsize=0%2C%20%40%2F%27 Kelso Group Department of...Wtdbg2: a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore
By Neel 2231 days agogithub.com - Wtdbg2 is a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ONT). It assembles raw reads without error correction and then builds the consensus from intermediate assembly output. Wtdbg2...
Monitor running jobs on Linux server
Last updated 3826 days ago by Jitendra NarayanYou as a bioinformatican run lots of program on your servers. Sometime the shared server is also used by your colleague. If server is busy you sometime need to check the running programs and want to monitor the running programs as well. The "top"...SViper: Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact...
By Neel 1802 days agogithub.com - Call sviper ~$ ./sviper -s short-reads.bam -l long-reads.bam -r ref.fa -c variants.vcf -o polished_variants This will output a polished_variants.vcf file, that contains all the refined variants. Sometimes it is helpful to look at the...SLR-superscaffolder: A scaffold assemble pipeline for stLFR reads.
By Jit 1747 days agogithub.com - This is a scaffold assembler designed for stLFR reads[1]. It uses the link-reads information from stLFR reads to assemble contigs to scaffolds. Here is an illustration of this pipeline:Assistant Professor in Bioinformatics at Dr. D. Y. Patil Biotechnology & Bioinformatics...
Dr. D. Y. Patil Biotechnology & Bioinformatics Institute Tathawade, Pune 411033. Assistant Professor in Bioinformatics Essential : First Class Master’s Degree in the appropriate branch of Life Sciences / Technology (Tech.) OR Ph.D...mixtureS: a novel tool for bacterial strain reconstruction from reads
By BioStar 1559 days agowww.cs.ucf.edu - mixtureS that can de novo identify bacterial strains from shotgun reads of a clonal or metagenomic sample, without prior knowledge about the strains and their variations. Tested on 243 simulated datasets and 195 experimental datasets, mixtureS...
