Qualimap2: Evaluating next generation sequencing alignment data
...line interface to facilitate the quality control of alignment sequencing data and its derivativ... Supported types of experiments include: Whole-genome sequencing Whole-exome sequencing RNA-seq (speical mode available) ChIP-s...2117 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
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
Quality assessment of this mRNA Transcript Assembly Software is described in EvidentialGene_quality. Too m...and now the only way to get it is to produce way too many assemblies on a good RNA data s...2097 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 a...who intersect some region around the variant locations. Alternatively, if your scientific question i...2093 days ago
2093 days ago
BAUM – Improving Genome Assembly by Adaptive Unique Mapping and Local Overlap-Layout-Consensus
BAUM, breaks the whole genome into regions by adaptive unique mapping; then the lo...ve the results of existing assemblies that are obtained based on short or long sequencing reads.2073 days ago
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 realignm...and WGS500 projects, and is being used in clinical sequencing trials in the Mainstream...2073 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.2072 days ago