snakepipes: A toolkit based on snakemake and python for analysis of NGS data
snakePipes are flexible and powerful workflows built using snak...conda : 'conda install -c mpi-ie -c bioconda -c conda-forge snakePipes'. Source code...s://snakepipes.readthedocs.io/en/latest/) are available online.1796 days ago
3d-dna: 3D de novo assembly (3D DNA) pipeline
This code is designed to enable anyone to reproduce the Hs2-HiC and...procedure is described in detail in the Supporting Online Materials, specifically in...questions and comments at: http://www.aidenlab.org/forum.h...2314 days ago
Circoletto: visualizing sequence similarity with Circos
Circoletto, an online visualization tool based on Circos, which provides a fast, aesthetically pleasing and informative overview of sequence similarity search results. Online version and downloadable software package for off...2271 days ago
Gblocks: eliminates poorly aligned positions and divergent regions of a DNA or protein alignment
Gblocks eliminates poorly aligned positions and divergent...rotein alignment so that it becomes more suitable for phylogenetic analysis. This s...ocks selected from a protein alignment. Further information can be found in the online...2158 days ago
D-GENIES: A tool for Dotplot large Genomes in an Interactive, Efficient and Simple way
D-GENIES – for Dotplot large Genomes in an Interactive, Efficient and Simple way – is an online...2149 days ago
RestrictionDigest: A powerful Perl module for simulating genomic restriction digests
RestrictionDigest can simulate the reference genome digestion and generate comprehensive information of the simulation. It c...rates concise comparison of enzyme(s) performance across the genomes. F...please see the academic paper published online...2148 days ago
VGSC: A Web-Based Vector Graph Toolkit of Genome Synteny and Collinearity
VGSC, the Vector Graph toolkit of genome Synteny and Collinearity, and its online service, to visualize the synteny and collinearity in the common graphical format, including both raster (JPEG, Bitmap, and PNG) and vector graphic (SVG, EPS, and PDF).2008 days ago
1967 days ago
Genome Annotation using MAKER tutorial !
MAKER is a great tool for annotating a reference genome using empirical and&n...zation that includes MAKER, has some nice tutorials online for running MAKER. However, these...re quite simplified examples and it took a bit of effort to...1956 days ago
gVolante: Completeness Assessment of Genome/Transcriptome Sequences
A brand-new web server, gVolante, which provides an online tool for (i) on-demand completeness assessment of sequence sets by means of the previously developed pipelines CEGMA and BUSCO and (ii) browsing pre-computed completeness scores for publicly available data in its database section1933 days ago