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...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...2138 days ago
LRCstats: a tool for evaluating long reads correction methods
LRCstats is an open-source pipeline for b...reads outputted by third generation sequencing technology such as machines p...e reads produced by third generation sequencing technology, as the name sugge...t reads outputted by next generation sequencing technologies to correct long...2138 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...2122 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 gen...s suitable for most genomes. The program could utilize Illumina Paired-end RNA-sequencing reads from target speciesies....2122 days ago
Qualimap2: Evaluating next generation sequencing alignment data
Qualimap 2 is a platform-independent application w...ace to facilitate the quality control of alignment sequencing data and its derivatives like...rted types of experiments include: Whole-genome sequencing Whole-exome sequencing RNA-...2118 days ago
2109 days ago
rHAT: a seed-and-extension-based noisy long read alignment tool
rHAT is a seed-and-extension-based noisy long read alignment tool. It is suitable for aligning 3rd generation sequencing reads which are in large read length with relatively high error rate, especially Pacbio's Single Molecule Read-time (SMRT) sequencing reads.2106 days ago
nQuire: a statistical framework for ploidy estimation using next generation sequencing
nQuire provides a statistical framework to study organisms with intraspecific variation in ploidy. nQuire is likely to be useful in epidemiological studies of pathogens,...2095 days ago
VariantBam: Filtering and profiling of next-generational sequencing data using region-specific rules
VariantBam is a tool to extract/count specific sets of sequencing reads from next-generational sequencing files. To save money, disk space and I/O, one may not want to store an entire BAM on disk. In many cases, it wo...2094 days ago