Tags: download, database, ncbi, ftp, genome, dna, reads, genome, assembly, files, ucsc
1542 days ago
SLR-superscaffolder: A scaffold assemble pipeline for stLFR reads.
This is a scaffold assembler designed for stLFR reads[1]. It uses the link-reads information from stLFR reads to assemble contigs to scaffolds. Here is an illustration of this pipeline:Tags: SLR-superscaffolder, scaffold, assemble, pipeline, stLFR, reads
1540 days ago
Tags: HiCanu, accurate, assembly, segmental, duplications, satellites, allelic, variants, high-fidelity, long, reads
1497 days ago
Filtlong: quality filtering tool for long reads
Filtlong is a tool for filtering long reads by quality. It can take a set of long reads and produce a smaller, better subset. It uses both read length (longer is better) and read identity (higher is better) when choosing which reads pass the filter. Filtlong builds into a stand-alone executable:...Tags: Filtlong, quality, filtering, tool, long, reads
1451 days ago
How to filter out host reads from paired-end fastq files?
How to filter out host reads from paired-end fastq files?Tags: filter, host, reads, paired-end, fastq, files
1466 days ago
HASLR: a hybrid assembler which uses both second and third generation sequencing reads
HASLR, a hybrid assembler which uses both second and third generation sequencing reads to efficiently generate accurate genome assemblies. Our experiments show that HASLR is not only the fastest assembler but also the one with the lowest number of misassemblies on all the samples compared to othe...Tags: HASLR, hybrid, assembler, third, generation, sequencing, reads, illumina, pacbio, ont, assembly, genome
1460 days ago
Tags: bbmap, mapping, pe, reads
1446 days ago
Tags: KAD, Assessing, genome, assemblies, K-mer, assemblies, abundance, Illumina, reads
1414 days ago
SHAMAN: a user-friendly website for metataxonomic analysis from raw reads to statistical analysis
SHAMAN is a shiny application for differential analysis of metagenomic data (16S, 18S, 23S, 28S, ITS and WGS) including bioinformatics treatment of raw reads for targeted metagenomics, statistical analysis and results visualization with a large variety of plots (barplot, boxplot, heatmap, &hellip...Tags: SHAMAN, user-friendly, website, metataxonomic, analysis, raw, reads, statistical, analysis
1355 days ago
SqueezeMeta: a fully automated metagenomics pipeline, from reads to bins
SqueezeMeta is a full automatic pipeline for metagenomics/metatranscriptomics, covering all steps of the analysis. SqueezeMeta includes multi-metagenome support allowing the co-assembly of related metagenomes and the retrieval of individual genomes via binning procedures. Thus, SqueezeMeta featur...Tags: SqueezeMeta, fully, automated, metagenomics, pipeline, reads, bins
1355 days ago