SIMBA: a Genome Assembly Project Management System
SIMBA, SImple Manager for Bacterial Assemblies, is a Web interface for managing ass...bioinformaticians to assemble bacterial genomes sequenced with NextGeneration Sequencing (NGS) platforms quickly, easi...2040 days ago
2022 days ago
FGENESH - Program for predicting multiple genes in genomic DNA sequences
FGENESH is the fastest (50-100 times faster than GenScan) and most accurate gene finder available - see the figure and the table below. In recent rice genome sequencing projects, it was cited "the m...2019 days ago
NanoPack: visualizing and processing long-read sequencing data
The NanoPack tools are written in Python3 and released under the GNU GPL3.0 License. The source code can be found at https://github.com/wdecoster/nanopack, together with...2014 days ago
Hawkeye: an interactive visual analytics tool for genome assemblies
Genome sequencing remains an inexact science, and genome sequences can contain significant errors if they are not carefully examined. Hawkeye is our new visual analytics too...2007 days ago
EXCAVATOR: detecting copy number variants from whole-exome sequencing data
EXCAVATOR, for the detection of copy number variants (CNVs) from whole-exome sequencing data. EXCAVATOR combines a th...on of copy number variants (CNVs) from whole-exome sequencing data.EXCAVATOR has been publi...2004 days ago
kallisto: a program for quantifying abundances of transcripts from bulk and single-cell RNA-Seq data
kallisto is a program for quantifying abundances of transcripts from bulk and...cell RNA-Seq data, or more generally of target sequences using high-throughput sequencing reads. It is based on the nov...2001 days ago
2001 days ago
LTR_Finder: an efficient program for finding full-length LTR retrotranspsons in genome sequences.
LTR_Finder is an efficient program for finding full-length LTR retrotran...gram first constructs all exact match pairs by a suffix-array based algo...d extends them to long highly similar pairs. Then Smith-Waterman algorit...o identify PBS, PPT and RT inside LTR pairs by b...1996 days ago
SvABA: Genome-wide detection of structural variants and indels by local assembly
SvABA is a method for detecting structural variants in sequencing data using genome-wide local assembly. Under the hood, SvABA u...to the reference with BWA-MEM and parsed to identify variants. Sequencing reads are then realigned to t...1987 days ago