Platypus: A Haplotype-Based Variant Caller For Next Generation Sequence Data
Platypus is a tool designed for efficient and accurate variant-detection in high-throughput sequencing data. By using local realignment of reads and local assembly it achieves both high sensitivity and h...and is being used in clinical sequencing trials in the Mainstream...2076 days ago
COSINE: non-seeding method for mapping long noisy sequences
Third generation sequencing (TGS) are highly promising technologies but the long and noisy reads from TGS are difficult to align using existing algorithms. Here, we present COSINE, a conceptually new method designed specifically for aligning long reads contaminated by a high level of errors.2075 days ago
Referee: Genome assembly quality scores
Modern genome sequencing technologies provide a succint measure of quality at each position in every read, however all of this information is lost in the assembly process. Refer...2065 days ago
AMStat: display statistics of large sequence files from next generation sequencing projects
SAMStat is an efficient C program to quickly display statistics of larg...e sequence files from next generation sequencing projects. When applied...ics are reported for unmapped, poorly and a...of problems, such as remaining linker and adaptor sequences, causing poor mapp...2060 days ago
Pacasus: Correction of palindromes in long reads from PacBio and Nanopore
Tool for detecting and cleaning PacBio / Nanopore long reads after whole genome amplification. Check the poster from the Revolutionizing Next-Generation Sequencing (2nd edition) conference in t...2058 days ago
sim3C: Read-pair simulation of 3C-based sequencing methodologies (HiC, Meta3C, DNase-HiC)
Required python modules biopython intervaltree numpy scipy tqdm PyYAML2057 days ago
Deepbinner: a signal-level demultiplexer for Oxford Nanopore reads
Deepbinner is a tool for demultiplexing barcoded Oxford Nanopore sequencing reads. It does this with...r demultiplexers (e.g. Albacore and&n...ch gives it greater sensitivity and fewer unclassified reads. Reasons...than Porechop. You used a sequencing/barcoding kit other than ...2043 days ago
lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data
lordFAST is a sensitive tool for mapping long reads with high error rat...signed for aligning reads from PacBio sequencing technology but provide...ent parameters depending on the reads and a...ed to align reads generated by PacBio and potentially other SMS technologies t...2043 days ago
SIMBA: a Genome Assembly Project Management System
SIMBA, SImple Manager for Bacterial Assemblies, is a Web interface for managi...erial genomes sequenced with NextGeneration Sequencing (NGS) platforms quickly, easily and e...ool, i.e., can be freely downloaded, shared and modified.2041 days ago
2022 days ago