SimLoRD: A read simulator for third generation sequencing reads
...or for third generation sequencing reads and is currently focused on t...fic Biosciences SMRT error model. Reads are simulated from both stran...tructure is respected when drawing reads. (Simulation of genome rearra...rding to number of passes Outputs reads in FASTQ format and alignment...2098 days ago
LRCstats: a tool for evaluating long reads correction methods
...g DNA long read correction algorithms for long reads outputted by third generation...machines produced by Pacific Biosciences. The reads produced by third generation...h as those produced by Illumina. However, long reads are plagued by high error rat...2098 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 p...ngth of k-mers, and second, the corrected reads are further polished using lo...ethod is the most accurate one relying on long reads only for read sets with high...2083 days ago
LSC: Improving PacBio Long Read Accuracy by Short Read Alignment
Added Command line argument support. Multi-stage execution modes. Support for parallelization. Now execution proceeds in batches of long reads the size of which can be set by --l...2083 days ago
P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
...ir-end RNA-seq to scaffold genome fragments. The method is suitable for most genomes. The program could utilize Illumina Paired-end RNA-sequencing reads from target speciesies. Our m...2082 days ago
Rebaler: program for conducting reference-based assemblies using long reads.
Rebaler is a program for conducting reference-based assemblies using long reads. It relies mainly on minimap2 for alignment and Racon for making consensus sequenc...2071 days ago
2068 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
VariantBam: Filtering and profiling of next-generational sequencing data using region-specific rules
...l to extract/count specific sets of sequencing reads from next-generational sequen...re efficient to store only those read-pairs or reads who intersect some region aro...ne aspect of the data (e.g. breakpoints), many reads can be removed without losing...2055 days ago
2055 days ago