Kevler: Reference-free variant discovery in large eukaryotic genomes
Welcome to kevlar, software for predicting de novo genetic variants without mapping reads to a ref...del. More at https://kevlar.readthedocs.io/en/latest/ https://www.cell.com...1587 days ago
Deepbinner: a signal-level demultiplexer for Oxford Nanopore reads
Deepbinner is a tool for demultiplexing barcoded Oxford Nanopore sequencing reads. It does this with a deep convolutional neural network classifier, using many of the ar...1574 days ago
netGO: R-Shiny package for network-integrated pathway enrichment analysis
netGO is an R/Shiny package for network-integrated pathway enrichment analysis.netG...ides user-interactive visualization of enrichment analysis results and related networks. Currently, netGO supports a...1572 days ago
1571 days ago
medaka: Sequence correction provided by ONT Research
medaka is a tool to create a consensus sequence from nanopore sequencing data. This task is performed using neural networks applied from a pileup of indi...1476 days ago
ShinyGO v0.61: Gene Ontology Enrichment Analysis + more
2/3/2020: Now published by Bioinformatics. 11/3/2...l visualization (thanks to reviewers). Interactive networks and much more. 5/20/2019: V....nes highlighted, hierarchical clustering trees and networks summarizing overlapping terms...1460 days ago
RNA-Bloom: a fast and memory-efficient de novo transcript sequence assembler
RNA-Bloom is a fast and memory-efficient de novo transcript sequence assembler. It is designed for...ngle-end/paired-end bulk RNA-seq (strand-specific/agnostic) paired-end single-cell RNA...1424 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 Contr...ctors that drive gene changes in 4 settings: 1) A cell line expressing or lacking si...gle TF in a particular neuronal subtype 4) Single cell RNA...1284 days ago
1226 days ago
A guide to machine learning for biologists
We aim to provide readers with a gentle introduction to a few key machine learning...g the most recently developed and widely used techniques involving deep neural networks. We describe how different te...991 days ago