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 includ...2126 days ago
SimLoRD: A read simulator for third generation sequencing reads
...genome rearrangements may be incorporated at a later stage.) The read lengths can be determined in four wa...RNA), sampling from a a text file with integers (RNA), or using a fixed length Quality values and number of...2124 days ago
LRCstats: a tool for evaluating long reads correction methods
...uch as machines produced by Pacific Biosciences. The reads produced by third generation sequencing technology, as the name suggests, are longer in length than reads produced by next g...2124 days ago
LoRMA: A tool for correcting sequencing errors in long reads
...ads only. The method consists of two phases: first, we use an iterative alignment-free correction method based on de Bruijn graphs with increasing length of k-mers, and second, t...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.2093 days ago
LTR_Finder: an efficient program for finding full-length LTR retrotranspsons in genome sequences.
LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences. The Program first constructs all exact match pairs by a suffix-array based algorit...1980 days ago
1825 days ago
chromoMap-An R package for Interactive Visualization and Annotation of Chromosomes
...nts (like genes,SNPs etc.) on the chromosome plot.Each chromosome is composed of loci(representing a specific range determined based on chromosome length) that, on hover, shows detail...1743 days ago
StringTie Transcript assembly and quantification for RNA-Seq
...tential transcripts. It uses a novel network flow algorithm as well as an optional de novo assembly step to assemble and quantitate full-length transcripts representing mult...1468 days ago
1614 days ago