AfterQC: Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
...ads, bad reads and the QC results of each fastq file/pair. Currently it supports processing data from HiS...ats The author has reimplemented this tool in C++ with multithreading support to make it much faster. T...2197 days ago
JBrowse: Embeddable genome browser built completely with JavaScript and HTML5
...d. Scales easily to multi-gigabase genomes and deep-coverage sequencing. Quickly open and view data files on your computer without uploading them to any server. Supports GFF3, BED, FASTA, Wiggle...2197 days ago
ASplice: a scalable and memory-efficient algorithm for de novo transcriptome assembly
...K, Jones CD, Tarone AM. (2017) A scalable and memory-efficient algorithm for de novo transcriptome assembly of non-model organisms. BMC Genomics 18(Suppl 4):387.2193 days ago
KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
...details of how to install and use KAT. For more extensive documentation please visit: https://kat.readthedocs.org/en/latest/ https://academic.oup.com/bioinformatics/article/33...2041 days ago
ASAR: Advanced metagenomic Sequence Analysis in R
...tion and visualization of metagenomic data is presented. Functional analysis with a SEED hierarchy and pathway diagram based on KEGG orthology based upon MG-RAST annotation results...2187 days ago
Epiviz: an interactive visualization tool for functional genomics data.
...iz is an interactive visualization tool for functional genomics data. It supports genome navigation like o...data within genomic regions using scatterplots, heatmaps and other user-supplied visualizations. It also...2187 days ago
FastANI: fast alignment-free computation of whole-genome Average Nucleotide Identity (ANI)
...of orthologous gene pairs shared between two microbial genomes. FastANI supports pairwise comparison of b...sed ANI solver and it achieves two to three orders of magnitude speedup. Therefore, it is useful for...2182 days ago
Genome U-Plot: a whole genome visualization
...f the Genome U-Plot are its layered layout, its high spatial resolution and its improved aesthetic qualities. https://github.com/gaitat/GenomeUPlot2182 days ago
LSC :a long read error correction tool
...l help you integrate LSC into your transcriptomics analysis pipeline. Read the LSC_requirements for running LSC. Download and set-up the LSC package. Follow the&...2163 days ago
FinisherSC:a repeat-aware tool for upgrading de novo assembly using long reads
Here is the command to run the tool: python finisherSC.py destinedFolder mummerPath If you are running on server computer and would like to use multiple threads,...2145 days ago