pggb: the pangenome graph builder
This pangenome graph construction pipeline renders a collection of sequences into a pangenome graph (in the variation graph model). Its goal is to build a graph that i...1393 days ago
G-NEST: The Gene NEighborhood Scoring Tool
The Gene NEighborhood Scoring Tool (G-NEST) combines genomic location, gene expression, and evolutionary sequence conservation data to score putative gene neighborhoods across all window sizes. Primary author of final code = William F. Martin. Example data files are in the separate repository.1381 days ago
1350 days ago
DADA2: Fast and accurate sample inference from amplicon data with single-nucleotide resolution
The DADA2 tutorial goes through a typical workflow for paired end Illumina Miseq data: raw amplicon sequencing data is processed into the table o...each sample. The DADA2 Workflow on Big Data goes through workflow op...1335 days ago
Updated science-wide author databases of standardized citation indicators
There was great interest in the databases of standardized citation metr...urged us to provide updates of the databases. Accordingly, we have pr...hat use citations from Scopus with data freeze as of May 6, 2020, ass...10.17632/btchxktzyw). The original database (version 1) can also be f...1330 days ago
DnaSP: DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms
DnaSP, DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms using data from a single locus (a multiple sequence aligned -MSA data), or from several loci (a Mul...1320 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 data to look for statistical enric...1319 days ago
COVID Moonshot: An international effort to DISCOVER A COVID ANTIVIRAL
The COVID Moonshot is an ambitious crowdsourced initiative to accelerate the development of...nts. This way, any scientist can view submitted drug designs and experimental data to inspire new design ideas....1296 days ago
Applied Computational Genomics Course at UU: Spring 2020
This course will provide a comprehensive introduction to fundamen...alysis and interpretation of experimental genomics data. It will be structured as a s...sis. Students will learn and apply the fundamental data formats and analysis strategi...1293 days ago
maftools : Summarize, Analyze and Visualize MAF Files
With advances in Cancer Genomics, Mutation Annotation Format...of each cancer type being over 200. Resulting data consisting of somatic va...CGA sources or any in-house studies as long as the data is in MAF format.1293 days ago