dnaPipeTE: a pipeline designed to find, annotate and quantify Transposable Elements
...mp; annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify Transposable Elements in small samples of NGS datasets. It is very useful t...1721 days ago
ngs-bits - Short-read sequencing tools
Binaries of ngs-bits are available via Bioconda. Alternatively, ngs-bits can be built from sources: Binaries for Linux/macOS From sources for Linux/macOS From sources for Windows1564 days ago
ClinCNV: Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data
ClinCNV detects CNVs in germline and somatic context in NGS data (targeted and whole-genome). We work in cohorts, so it makes sense to try ClinCNV if you have more than 10...1564 days ago
Sequanix: a dynamic graphical interface for Snakemake workflows
A Python library dedicated to NGS analysis (e.g., tools to visualise standard NGS formats). A set of pipelines dedicated to NGS in the form of Snakefiles (Makefile-like with Python syntax based on snakemake framework) with mor...1538 days ago
LoFreq*: A sequence-quality aware, ultra-sensitive variant caller for NGS data
LoFreq* (i.e. LoFreq version 2) is a fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data. It makes full use of base-c...1531 days ago
Genobuntu: Package for Next Generation Sequencing and Genome Assembly
...e package containing more than 70 software and packages oriented towards NGS. In its current version, Geno...na SOAPdenovo Maq IDBA-UD No. of Reads present in the Ref. Seq. ART NGS Reads Simulator HiTEC, FASTQ...1441 days ago
Calling variants in non-diploid systems
The main challenge associated with non-diploid variant calling is the difficulty in distinguishing between the sequencing noise (abundant in all NGS platforms) and true low frequenc...1037 days ago
Choosing the Right NGS Sequencing Instrument for Your Study
...esign your sequencing run, fill out our free consultation form and we'll get in touch with you to help. More at https://genohub.com/ngs-instrument-guide/684 days ago