AfterQC: Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data AfterQC can simply go through all fastq files in a folder and then output three folders: good, bad a...2152 days ago
LSC :a long read error correction tool
Getting Started These simple steps will help you integrate LSC into your transcriptomics analysis pipeline. Read the LSC_requirements for running LSC. D...2117 days ago
AlignQC: A tool for assessing an alignment, and generating reports that are easy to share
Long read alignment analysis. Generate a reports on sequence alignments for mappability vs read sizes, error patterns, annotations and rarefraction curve analysis. The most basic ana...2113 days ago
FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
FMLRC, or FM-index Long Read Corrector, is a tool for performing hybrid correction of long read sequencing using the BWT and FM-index of short-read sequencing data. Gi...2109 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
...es rely on various graph based alignment techniques and do not take the error profile of the underlying tec...gned and developed Hercules, the first machine learning-based long read error correction algorithm. The alg...2099 days ago
CoLoRMap: Correcting Long Reads by Mapping short reads
...ress this issue. However, so far long reads are characterized by a high error rate, and assembling from lon...rid approaches that leverage the high quality of short reads to correct errors in long reads.We introduce C...2099 days ago
SimLoRD: A read simulator for third generation sequencing reads
...quencing reads and is currently focused on the Pacific Biosciences SMRT error model. Reads are simulated f...alues and number of passes depend on fragment length. Provided subread error probabilities are modified ac...2097 days ago
LRCstats: a tool for evaluating long reads correction methods
...as those produced by Illumina. However, long reads are plagued by high error rates, which can cause issues in downstream analysis. Long read correction algorithms reduce the error rate of long reads either thr...2097 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 g...2082 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.2066 days ago