Jit
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Run miniasm assembler on nanopore reads !
Last updated 3212 days ago by Jit Comments (5)Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly graph in the GFA format. Different from mainstream...TAREAN: A computational tool for identification and characterization of satellite DNA from...
By Surabhi Chaudhary 3064 days agobitbucket.org - TAndem REpeat ANalyzer -TAREAN – is a computational pipeline for unsupervised identification of satellite repeats from unassembled sequence reads. The pipeline uses low-pass whole genome sequence reads and performs their...Traineeship at Biomedical Informatics Centre PGIMER Chandigarh
Biomedical Informatics Centre PGIMER Chandigarh invites application for a project dissertation program for students who have completed their first year of M.Sc. in Bioinformatics. This is an exciting opportunity for Master's students to...npScarf: real-time scaffolder using SPAdes contigs and Nanopore sequencing reads
By Shruti Paniwala 3037 days agojapsa.readthedocs.io - npScarf (jsa.np.npscarf) is a program that connect contigs from a draft genomes to generate sequences that are closer to finish. These pipelines can run on a single laptop for microbial datasets. In real-time mode, it can be integrated with simple...RA Bioinformatics at Jamia Hamdard
Research Associate, Bioinformatics Facility Jamia Hamdard - New Delhi, Delhi Research Associate, Bioinformatics Facility, Jamia Hamdard. Emoluments: Rs. 22,000 + HRA 30% Qualification: PhD or equivalent or having 3 years of research, teaching...SimLoRD: A read simulator for third generation sequencing reads
By Aaryan Lokwani 2965 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...PANDASEQ is a program to align Illumina reads, optionally with PCR primers embedded in the...
By BioStar 2935 days agogithub.com - Development packages for zlib and libbz2 are needed, as well as a standard compiler environment. On Ubuntu, this can be installed via: sudo apt-get install build-essential libtool automake zlib1g-dev libbz2-dev pkg-config On MacOS, the Apple...UAS Dharwad Assistant Professor
UNIVERSITY OF AGRICULTURAL SCIENCES, DHARWAD Applications are invited in the prescribed form for filling up the following posts of Teachers and Service Personnel from the candidates who are qualified as on the last date fixed for receipt of...wtdbg2: A fuzzy Bruijn graph approach to long noisy reads assembly
By BioStar 2799 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...FastGT: an alignment-free method for calling common SNVs directly from raw sequencing reads
By Jit 2441 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...
