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 ont...2355 days ago
coursera genome assembly tutorial
Solutions to Coursera Genome Sequencing (Bioinformatics II)2353 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...ally by minimap) as input and outputs an assembly graph in the GFA fo...not the whole dataset), miniasm finishes the assembly, including reads overlapping,...plot gives a global view of the miniasm assembly (on the X axis) and the HGAP3...2351 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 fr...ed OPERA-LG has been re-engineered with features for the assembly of large and complex genomes....2351 days ago
Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome
...he nanopore reads using complementary MiSeq data and produce a de novo assembly that is highly contiguous and...contig N50 length is more than ten-times greater than an Illumina-only assembly (678kb versus 59.9kbp), and h...2349 days ago
Computational Genomics: Applied Comparative Genomics
...an genomics and human medical applications, but the techniques will be broadly applicable across the tree of life. The topics will include genome assembly & comparative genomics, v...2349 days ago
2349 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 each data format are available by clicking on "instructions" in each...2349 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 (...2345 days ago
Bandage: interactive visualization of de novo genome assemblies
Bandage (a Bioinformatics Application for Navigating De novo Assembly Graphs Easily) is a tool for visualizing assembly graphs with connections. Users can zoom in to specific areas of the graph...2344 days ago