ASplice: a scalable and memory-efficient algorithm for de novo transcriptome assembly
...researchers develop a transcriptome assembly algorithm that recovers alternatively spliced isoforms and expression levels while utilizing as many RNA-Seq libraries as possible tha...2130 days ago
2130 days ago
RNA-seq Analysis Workshop Course Materials
RNAseq can be roughly divided into two "ty...nome exists for a species for which an RNAseq experiment is performed. I...using de novo approaches. This type of RNAseq is as much of an art as we...on the Reference genome-based type of RNA seq. http://chagall.med.co...2130 days ago
REVIGO: Reduced Visualize gene ontology
REViGO can take long lists of Gene Ontology terms and summarize them by removing redundant GO terms. The remaining terms can be visualized in semantic similarity-base...2102 days ago
2088 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
...ses this to correct errors in these reads. Using datasets from two DNA-seq BAC clones (CH17-157L1 and CH17-227A2), and human brain cerebellum polyA RNA-seq, we show that Hercules-co...2082 days ago
SimLoRD: A read simulator for third generation sequencing reads
...r ways: drawing from a log-normal distribution (typical for genomic DNA), sampling from an existing FASTQ file (typical for RNA), sampling from a a text file with integers (RNA), or using a fixed length Qu...2080 days ago
P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
P_RNA_scaffolder is a novel scaffolding tool using Pair-end RNA-seq to scaffold genome fragment...uld utilize Illumina Paired-end RNA-sequencing reads from target...provides another practical alternative to existing mate-pair_bas...regions (for instance, circRNA).2064 days ago
Qualimap2: Evaluating next generation sequencing alignment data
...cing data and its derivatives like feature counts. Supported types of experiments include: Whole-genome sequencing Whole-exome sequencing RNA-seq (speical mode available)...2060 days ago
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
Quality assessment of this mRNA Transcript Assembly Software is described in EvidentialGene_quality....ow the only way to get it is to produce way too many assemblies on a good RNA data set, with several method...2040 days ago