RosettaAntibodyDesign (RAbD): A general framework for computational antibody design
RosettaAntibodyDesign (RAbD) is a generalized framework for the design of antibodies,...their project needs. The algorithm is meant to sample the div...of project types, from denovo design to redesigns that improve bin...tation/antibody/RosettaAntibodyDesign https://bio-jade.readthedocs...1351 days ago
URMAP, an ultra-fast read mapper
URMAP, a new read mapping algorithm. URMAP is an order of magnitude faster than BWA with comparable accuracy on several validation tests. On a Genome in a Bottle (GIAB)...1311 days ago
CRBHits: From Conditional Reciprocal Best Hits to Codon Alignments and Ka/Ks in R
CRBHits is a coding sequence (CDS) analysis pipeline in R (R Core Team, 2019). It reimplements the Conditional Reciprocal Best Hit (CRBH) algori...1298 days ago
MAGIC: A tool for predicting transcription factors and cofactors driving gene sets using ENCODE data
The algorithm presented herein, Mining Algorithm for GenetIc Controllers (MAGIC), uses ENCODE ChIP-seq d...sing or lacking single TF, 2) Breast tumors divided along PAM50 designations 3) Whole brain sample...1283 days ago
COVID Moonshot: An international effort to DISCOVER A COVID ANTIVIRAL
The COVID Moonshot is an ambitious crowdsourced initiative to accelerate the...perty constraints. This way, any scientist can view submitted drug designs and experimental data to inspire new design ideas. We use our cutting-edg...1260 days ago
SneakySnake: A Fast and Accurate Universal Genome Pre-Alignment Filter for CPUs, GPUs, and FPGAs
The first and the only pre-alignment filtering algorithm that works efficiently and fast on modern CPU, FPGA, and GPU architectures. SneakySnake greatly (by more than two order...1260 days ago
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
Hifiasm is a fast haplotype-resolved de novo assembler for PacBio Hifi reads. It can assemble a human genome in sever...competitive with the best assemblers. It also introduces a new graph binning algori...1256 days ago
Breedbase is a comprehensive breeding management and analysis software
Breedbase is a comprehensive breeding management and analysis software. It can be used to design field layouts, collect phenot...1242 days ago
874 days ago
AGORA: Algorithm for Gene Order Reconstruction in Ancestors
AGORA stands for “Algorithm for Gene Order Reconstruction in Ancestors” and was developed by Matthieu Muffato in the DYOGEN Laboratory at the École n...824 days ago