2147 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
Choosing whether to use second or third generation sequencing platforms can lead to trade-offs between accuracy and read length. Several studies require long and accurate reads including de novo...2141 days ago
CoLoRMap: Correcting Long Reads by Mapping short reads
Second generation sequencing technologies paved the way to an exceptional i...emblies. The recent developments in long reads sequencing methods offer a promising way...ong reads, such as the ones produced by PacBio sequencing technology, using high-qualit...2141 days ago
2140 days ago
SimLoRD: A read simulator for third generation sequencing reads
SimLoRD is a read simulator for third generation sequencing reads and is currently focused on the Pacific Biosciences SMRT error model. Reads are simulated from both strands of a provided or ra...2140 days ago
LRCstats: a tool for evaluating long reads correction methods
LRCstats is an open-source pipeline for benchma...reads outputted by third generation sequencing technology such as machines p...reads produced by third generation sequencing technology, as the name sugge...reads outputted by next generation sequencing technologies to correct long...2140 days ago
Snakemake—a scalable bioinformatics workflow engine
Snakemake is a workflow engine that provides a readable Python-based workflow definition language and a powerful execution environment that scales from single-core workstations to compute clusters without modifying the workflow.2128 days ago
LoRMA: A tool for correcting sequencing errors in long reads
An error correction method that uses long reads only. The method consists of two phases: first, we use an iterative alignment-free correction method based on de Bruijn gr...2124 days ago
P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
P_RNA_scaffolder is a novel scaffolding tool using Pair-end RNA-seq to scaffold genome f...suitable for most genomes. The program could utilize Illumina Paired-end RNA-sequencing reads from target speciesies....2124 days ago
STRUM: structure-based prediction of protein stability changes upon single-point mutation
STRUM is a method for predicting the fold stability change (ΔΔG) of protein molecules upon single-point nsSNP mutations. STRUM adopts a gradient boosting regr...2121 days ago