Taxoblast : Taxoblast is a pipeline to identify contamination in genomic sequence
Modern genome sequencing strategies are highly...ing the detection of foreign DNA sequences an important part of analy...embly detection of contaminating sequences in the published genome of the kelp Saccharina jap...tiple blastn searches with short sequence fragments. They revealed a nu...2413 days ago
coursera genome assembly tutorial
Solutions to Coursera Genome Sequencing (Bioinformatics II)2411 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...y concatenates pieces of read sequences to generate the final unitig sequences. Thus the per-base error r...nutes to assemble a bacterial genome. Under the default setting, min...t for high-coverage bacterial genomes, it is possible to generate lo...2409 days ago
RITA: Rapid identification of high-confidence taxonomic assignments for metagenomic data
RITA is a standalone software package and W...taxonomic assignment of metagenomic sequence reads. By combining homology...ch combine these predictions for all sequences to be classified, RITA uses...nstitute the highest-confidence set. Sequences not classified in this manne...2409 days ago
Opera: An optimal genome scaffolding program
...ired-End Read Assembler) is a sequence assembly program (http://en.wikipedia.org/wiki/Sequence_assembly ). It uses in...assembly of large and complex genomes.Song Gao, Denis Bertrand, Burt...th high-throughput paired-end sequences. Journal of Computational Bi...2409 days ago
simNGS and simLibrary – Software for Simulating Next-Gen Sequencing Data
simNGS is software for simulating observations from Illum...nt in real data ("dust", bubbles, merged clusters, sequence-heterogeneous clusters, etc)....may optionally applied. simNGS takes fasta format sequences and a file describing the co...2408 days ago
Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome
Monitoring the progress of DNA molecules through a membrane pore has been postulated as...able that we used for sequencing the S. cerevisiae genome. To make use of these data, w...ore complete representation of the features of the genome a...2407 days ago
Computational Genomics: Applied Comparative Genomics
The primary goal of the course is for students to be grounded in theory and leave the c...uantitative approaches for comparing and analyzing genomes starting from raw sequencing...e across the tree of life. The topics will include genome a...2407 days ago
2407 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 tab on th...2407 days ago