NCBI Prokaryotic Genome Annotation Pipeline
.... Genome annotation is a multi-level process that includes prediction of protein-coding genes, as well as other functional genome units such as structural RNAs, tRNAs, small RNAs, pseu...2545 days ago
TARDIS: Toolkit for automated and rapid discovery of structural variants
tardis Toolkit for Automated and Rapid DIscovery of Structural variants Requirements zlib (http://www.zlib.net)mrfast (https://github.com/BilkentCompGen/mrfast)htslib (included as su...2521 days ago
RNAcon: web-server for the prediction and classification of non-coding RNAs
...on model for the classification of ncRNAs into different classes. The structural information based graph prope...Raghava, G.P.S. (2014) Prediction and classification of ncRNAs using structural informationBMC Genomics 2014,...2483 days ago
2357 days ago
Ribbon: Visualizing complex genome alignments and structural variation:
Ribbon can be used for long reads, short reads, paired-end reads, and assembly/genome alignments. Instructions for each data format are available by clicking on "instruct...2348 days ago
SVfinder: Tool for detecting genomic rearrangement form DNA-seq data
SVfinder provides genome-wide detection of structural variants from next generation paired-end sequencing reads.2333 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
...kly and correctly align the reads, including those spanning (complex) structural variations. Ngmlr uses an SV...more precisely identifying the position of breakpoints stemming from structural variations. The k-mer search...2201 days ago
Flye: Fast and accurate de novo assembler for single molecule sequencing reads
...ot require them to be error-corrected. After the initial assembly, Flye performs an extra repeat classification and analysis step to improve the structural accuracy of the resulting seq...2192 days ago
npScarf: real-time scaffolder using SPAdes contigs and Nanopore sequencing reads
...hat are closer to finish. These pipelines can run on a single laptop for microbial datasets. In real-time mode, it can be integrated with simple structural analyses such as gene orderin...2154 days ago
2153 days ago