mixtureS: a novel tool for bacterial strain reconstruction from reads
mixtureS that can de novo identify bacterial strains from shotgun reads of a clonal or metagenomic sample, without prior knowledge about the strains and their variations. Tested on...1407 days ago
RosettaAntibodyDesign (RAbD): A general framework for computational antibody design
...neralized framework for the design of antibodies, in which a user can easily tailor the run to their project needs. The algorithm is meant to sample the diverse sequence, structu...1377 days ago
DADA2: Fast and accurate sample inference from amplicon data with single-nucleotide resolution
...Illumina Miseq data: raw amplicon sequencing data is processed into the table of exact amplicon sequence variants (ASVs) present in each sample. The DADA2 Workflow on...1326 days ago
maftools : Summarize, Analyze and Visualize MAF Files
...idely accepted and used to store somatic variants detected. The Cancer Genome Atlas Project has sequenced over 30 different cancers with sample size of each cancer type bein...1283 days ago
924 days ago
oGNM:Conformational dynamics based on contact topology in a coarse-grained presentation
Gaussian Network Model (GNM) is a powerful tool to sample conformational dynamics based on contact topology in a coarse-grained presentation. Here we present a method to consider prot...893 days ago
JASMINE: Jointly Accurate Sv Merging with Intersample Network Edges
...d to merge structural variants (SVs) across samples. Each sample has a number of SV calls, con...asmine represents the set of all SVs across samples as a network, and uses a mod...f analogous variants occurring in different samples.727 days ago
MetaGraph: Ultra Scalable Framework for DNA Search, Alignment, Assembly
...igned to work with a wide range of input data sets, indexing from a few samples up to the contents of entire...g workflow always follows the same principle, transforming single input samples into error-removed, refined...20 days ago