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Grinder / Biogrinder - A versatile omics shotgun and amplicon sequencing read simulator
...be used to help decide between alternative sequencing methods for a sequence-based project, e.g. should the library be paired-end or not, how many reads should be sequenced....2549 days ago
- ...evel graphic functions for adding common graphics in a circular layout. This page aims to learn you how to use the library, so I strongly advise to read the graphics in the proposed...
2523 days ago
- ...s multiple samples or timepoints. Visualizing coverage plots of RNA-Seq read alignments. Key Features...les, VCF-encoded SNPs, tab-delimited files Outputs publication-ready figures in the SVG ...
2517 days ago
Perlbrew: admin-free perl installation management tool.
...dmin-free perl installation management tool. The latest version is 0.79, read the release note: Releas...ation and initialization. For more advanced installation process, please read the perlbrew document....2500 days ago
Meraculous: De Novo Genome Assembly with Short Paired-End Reads
...whole genome assembly of deep paired-end short reads, and apply it to the assembly of a dataset of paired 75-bp Illumina reads derived from the 15.4 megaba...it error correction step as used in other short-read assemblers. A novel memory-ef...2382 days ago
QuorUM: An Error Corrector for Illumina Reads
...hort (most often 100 bp to 150 bp) reads at a low cost. Even with low...ta on average has an error in some read at every base in the genome....count erroneous k-mers in the reads. However, there is enough in...aimed at error correcting Illumina reads for subsequent assembly. It...2381 days ago
Unicycler: Hybrid assembly pipeline for bacterial genomes
...ial genomes. It can assemble Illumina-only read sets where it functions as a&...bsp;SPAdes-optimiser. It can also assembly long-read-only sets (PacBio or&nbs...best possible assemblies, give it both Illumina reads and long reads, an...2379 days ago
- DiscoSnp is designed for discovering all kinds of SNPs (not only isolated ones), as well as insertions and deletions, from raw set(s) of reads. The number of input read sets is not constrained, it can be one, two, or more. No reference genome is needed.
2369 days ago
TULIP - The Uncorrected Long read Itegration Pipeline
#Running TULIP (The Uncorrected Long-read Integration Process), version 0.4 late 2...lipseed takes as input alignments files of long reads to sparse short seeds, and o...ph and scaffold structures. Tulipbulb adds long read sequencing data to these. &n...2366 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...o assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by&n...t simply concatenates pieces of read sequences to generate the fin...inishes the assembly, including reads overlapping, in ~10 minutes...contigs from raw PacBio or ONT reads without error correction. It...2362 days ago
