Standardized velvet assembly report
Requirements: velvet (velveth velvetg should be in your PATH) R (with Sweave) pdflatex (usually part of TeTeX) ggplot2 (from R prompt type install.packages("ggplot2","proto","xt...2702 days ago
2688 days ago
YASRA: Reference based assembler
...er version) for aligning the sequences to the reference genome. Please install LASTZ (the newest version on...and add the LASTZ binary in your executable/binary search path before installing YASRA....2620 days ago
GeneProf: analysis of high-throughput sequencing experiment
...ights include: Easy-to-use web-based interface:Access your data at any time from any computer with a working internet connection -- no need to install software! (cp. Section '...2494 days ago
Perlbrew: admin-free perl installation management tool.
perlbrew is an admin-free perl installation management tool. The latest...your terminal: \curl -L https://install.perlbrew.pl | bash Or, if...lse: # Linux \wget -O - https://install.perlbrew.pl | bash # FreeB...OTenvironment variable before the installation and initialization. For...2487 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...te wget -O- http://www.cbcb.umd.edu/software/PBcR/data/selfSampleData.tar.gz | tar zxf - ln -s selfSampleData/pacbio_filtered.fastq reads.fq # Install minimap and miniasm (requirin...2349 days ago
Ribbon: Visualizing complex genome alignments and structural variation:
...mbly/genome alignments. Instructions for each data format are available by clicking on "instructions" in each tab on the right. Local installation: You can install Ribbon locally from Github by...2347 days ago
PLAST: A fast, accurate and NGS scalable bank-to-bank sequence similarity search tool
...(E-Value, identity, coverage, alignment length, etc.), Does not require any additional hardware, since it is a software solution. It is easy to install, cost-effective, takes full a...2345 days ago
Building Web UIs With Mojolicious Perl
...dependencies, comes with a built-in development and production server and many other features one needs to build a web application. It's easy to install, has an applciation generator...2320 days ago
snakepipes: A toolkit based on snakemake and python for analysis of NGS data
...eq* ATAC-seq* scRNA-seq Hi-C Whole Genome Bisulfite Seq/WGBS (*Also available in "allele-specific" mode) snakePipes can be installed via conda : 'conda install -c mpi-ie -c bioconda -c cond...1800 days ago