miREM: an expectation-maximization approach for prioritizing miRNAs associated with gene-set
From list of genes... ... to microRNAs Using established miRNA-interaction databases, miREM combines hypergeometric and expectation-maximization algorithms to sieve through your genetic data for microRNA signatures https://bioinfo-csi.nus.edu.sg/mirem2/2141 days ago
LoRMA: A tool for correcting sequencing errors in long reads
...osed method is the most accurate one relying on long reads only for read sets with high coverage. Furthermore, when the coverage of the read set is at least 75×, the th...2119 days ago
LSC: Improving PacBio Long Read Accuracy by Short Read Alignment
...ument support. Multi-stage execution modes. Support for parallelization. Now execution proceeds in batches of long reads the size of which can be set by --long_read_batch_size N....2119 days ago
Ensembl Variation - Calculated variant consequences
...ping Ensembl transcripts. We then use a rule-based approach to predict the effects that each allele of the variant may have on each transcript. The set of consequence terms, defined...2116 days ago
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
...t is the "right sequence" you want, and now the only way to get it is to produce way too many assemblies on a good RNA data set, with several methods and several parameter settings.2094 days ago
KOBAS: a web server for gene/protein functional annotation and functional gene set enrichment
...protein functional annotation (Annotate module) and functional gene set enrichment(Enrichment module)...gene list or gene expression data as input, and generates enriched gene sets, corresponding name, p-value...2076 days ago
QUAST-LG: Versatile genome assembly evaluation
...nstructed completely due to complex repeat patterns and low coverage regions, we introduce a concept of upper bound assembly for a given genome and set of reads, and compute theoret...2070 days ago
regioneR: an R package for the management and comparison of genomic regions
...he management and comparison of genomic regions. It offers a set of function for basic manipulation of region sets extending the functionality...mework. With it, it's possible to study the association of a set of regions with other sets of...2023 days ago
2022 days ago
Versatile genome assembly evaluation with QUAST-LG
...analysis The concept of upper bound assembly (theoretical limits on the assembly completeness and contiguity for a given genome and set of reads)...2013 days ago