HiC-Pro: an optimized and flexible pipeline for Hi-C data processing
...HiC-Pro can be used to process dilution Hi-C, in situ Hi-C, DNase Hi-C, Micro-C, capture-C, capture Hi-C or HiChip data. http://nservant.github.io/HiC-Pro/...2399 days ago
2398 days ago
jobTree based python wrapper to run the genome simulation tool suite Evolver
evolverSimControl (eSC) can be used to simulate multi-chromosome genome evolution on an arbitrary phylogeny (Newick format). In addition to simply running evolver,...2396 days ago
Mash: fast genome and metagenome distance estimation using MinHash
Mash is normally distributed as a dependency-free binary for Linux or OSX (see https://github.com/marbl/Mash/releases). This source distribution is intended for other operating s...2392 days ago
NanoSim: nanopore sequence read simulator based on statistical characterization.
...R. The source files and manual are available at the Genome Sciences Centre website: http://www.bcgsc.ca/platform/bioinfo/software/nanosim https://github.com/bcgsc/NanoSim2386 days ago
Delta: a new Web-based 3D genome visualization and analysis platform
...on of genome topology/physical structure with extensive genome annotation by juxtaposing the 3D model with diverse genomic assay outputs. https://github.com/zhangzhwlab/delta2384 days ago
SMASH: An alignment-free tool to find and visualise rearrangements between pairs of DNA sequences
SMASH is a completely alignment-free method to find and visualise rearrangements between pairs of DNA sequences. The detection is based on relative compression, na...2383 days ago
snakepipes: A toolkit based on snakemake and python for analysis of NGS data
...specific" mode) snakePipes can be installed via conda : 'conda install -c mpi-ie -c bioconda -c conda-forge snakePipes'. Source code (https://github.com/maxplanck-ie/snakepipes)...1858 days ago
Ra assembler - a de novo DNA assembler for third generation sequencing data
...ry sensitive and specific overlapper ("graphmap -w owler", https://github.com/isovic/graphmap) and constructing and reducing an overlap graph (Ra layout, https://github.com/mariokostelac/ra).2377 days ago
Jabba: Hybrid Error Correction for Long Sequencing Reads
...t is a file in fasta format with corrections of the long reads, and additionally a file in the input format containing uncorrected reads. https://github.com/biointec/jabba/wiki http...2038 days ago