NextSV: a meta-caller for structural variants from low-coverage long-read sequencing data
NextSV, a meta SV caller and a computational pipeline to perform SV calling from low coverage long-read sequencing data. NextSV integrates three aligners and three SV ca...2113 days ago
PureCN: copy number calling and SNV classification using targeted short read sequencing
This package estimates tumor purity, copy number, and loss of heterozygosity (LOH),...lassification using targeted short read sequencing.” Source Code for Biology and Medicine, 11, 13. do...2111 days ago
FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
FMLRC, or FM-index Long Read Corrector, is a tool for performing hybrid correction of long...a longer "K-mer". This allows FMLRC to correct through low complexity regions that are computa...2109 days ago
2105 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
Choosing whether to use second or third generation sequencing platforms can lead to trade-offs between accuracy a...NA-seq BAC clones (CH17-157L1 and CH17-227A2), and human brain cerebellum polyA RNA-seq...2099 days ago
SimLoRD: A read simulator for third generation sequencing reads
SimLoRD is a read simulator for third generation sequencing reads and is currently focused on the Pa...or genomic DNA), sampling from an existing FASTQ file (typical for RNA), sampling from a a text file with integers (RNA), o...2098 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 fragments....could utilize Illumina Paired-end RNA-sequencing reads from target...hod provides another practical alternative to existing mate-pair_bas...ne regions (for instance, circRNA).2082 days ago
Qualimap2: Evaluating next generation sequencing alignment data
Qualimap 2 is a platform-independent application written in Java and R that provides both a Graphical User I...pes of experiments include: Whole-genome sequencing Whole-exome sequencing RNA-seq...2078 days ago
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
Quality assessment of this mRNA Transcript Assembly Software is described in EvidentialGene_quality. Too ma...and now the only way to get it is to produce way too many assemblies on a good RNA dat...2058 days ago
2047 days ago