Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
...rs: good, bad and QC folders, which contains good reads, bad reads and the QC results of each fastq file/pair.Currently it supports processing data from HiS...2423 days ago
2422 days ago
DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication
We developed a prokaryotic genome annotation pipeline, DFAST, that also supports genome submission to public sequence databases. DFAST was originally started as an on-line annotatio...2422 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...d as a read overlapper, even though it is probably not as sensitive as the more sophisticated overlapers such as MHAP and DALIGNER. Coupled with long-read error corre...2409 days ago
Opera: An optimal genome scaffolding program
..._assembly ). It uses information from paired-end or long reads to optimally order and orient contigs assembled from shotgun-sequencing reads.An updated version called OPERA-LG...2409 days ago
2407 days ago
phyloXML: XML for evolutionary biology and comparative genomics
...ata. PhyloXML provides elements for commonly used features, such as taxonomic information, gene names and identifiers, branch lengths, support values, and gene duplication and speciation events...2407 days ago
dnaPipeTE: de-novo assembly & annotation Pipeline for Transposable Elements
...ttp://lbbe.univ-lyon1.fr/-Equipe-Elements-transposables-.html?lang=en You can find the original publication in GBE here: https://academic.oup.com/gbe/article/7/4/1192/5337...2403 days ago
Bandage: interactive visualization of de novo genome assemblies
...and implementation: Source code and binaries are freely available at https://github.com/rrwick/Bandage. Bandage is implemented in C++ and supported on Linux, OS X and Wind...2402 days ago
HiC-Pro: an optimized and flexible pipeline for Hi-C data processing
...Pro was designed to process Hi-C data, from raw fastq files (paired-end Illumina data) to the normalized contact maps. Since version 2.7.0, HiC-Pro supports the main Hi-C protocols,...2400 days ago