Taxoblast : Taxoblast is a pipeline to identify contamination in genomic sequence
Modern genome sequencing strategies are highly sensitive to contamination making the...se Taxoblast, a simple pipeline with a graphical user interface, for the post-assembly detection of contaminating se...2369 days ago
ONT assembly and Illumina polishing pipeline
This pipeline performs the following steps: Assembly of nanopore reads using Canu. Polish canu contigs using racon (optional). Map a paired-end Illumina dataset onto the co...2368 days ago
coursera genome assembly tutorial
Solutions to Coursera Genome Sequencing (Bioinformatics II)2367 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
Miniasm is a very fast OLC-based de nov...bsp;minimap) as input and outputs an assembly graph in the GFA fo...whole dataset), miniasm finishes the assembly, including reads overlapping,...p;gives a global view of the miniasm assembly (on the X axis) and the HGAP3...2365 days ago
Opera: An optimal genome scaffolding program
Opera (Optimal Paired-End Read Assembler) is a sequence assembly program (http://en.wikipedia.org/wiki/Sequence_assembly ). It uses information from paired-end or lo...A-LG has been re-engineered with features for the assembly of large and complex genomes....2364 days ago
Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome
Monitoring the progress of DNA molecules through a membran...ing complementary MiSeq data and produce a de novo assembly that is highly contiguous and...more than ten-times greater than an Illumina-only assembly (678kb versus 59.9kbp), and h...2363 days ago
Computational Genomics: Applied Comparative Genomics
The primary goal of the course is for students to be grounded in theory and leave the...be broadly applicable across the tree of life. The topics will include genome assembly & comparative genomics, v...2363 days ago
2363 days ago
Ribbon: Visualizing complex genome alignments and structural variation:
Ribbon can be used for long reads, short reads, paired-end reads, and assembly/genome alignments. Instructions for e...2363 days ago
dnaPipeTE: de-novo assembly & annotation Pipeline for Transposable Elements
dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline des...tion of TEs in newly sequenced genomes since it does not require genome assembly and works on small datasets (...2359 days ago