CoLoRMap: Correcting Long Reads by Mapping short reads
...nt developments in long reads sequencing methods offer a promisi...s the ones produced by PacBio sequencing technology, using high-quality Illumina paired-end reads mapped onto the long re...by local assembly of unmapped mates of mapped short reads. Our results...2139 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...2137 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...2137 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
...affolder is a novel scaffolding tool using Pair-end RNA-seq to scaffold genom...enomes. The program could utilize Illumina Paired-end RNA-sequencing reads from target speci...another practical alternative to existing mate-pair_based approaches or other Protein-b...2121 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
2108 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.2105 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,...2094 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 no...it would be more efficient to store only those read-pairs or reads who intersect some region...2094 days ago