mixtureS: a novel tool for bacterial strain reconstruction from reads
...bout the strains and their variations. Tested on 243 simulated datasets and 195 experimental datasets, mixtureS reliably identified...t all simulated datasets and the vast majority of experimental datasets. Availability The sourc...1365 days ago
DADA2: Fast and accurate sample inference from amplicon data with single-nucleotide resolution
...n sequence variants (ASVs) present in each sample. The DADA2 Workflow on Big Data goes through workflow optimized to run on large datasets (10s of millions to billions...1283 days ago
Updated science-wide author databases of standardized citation indicators
...tabase (version 1) can also be found in https://data.mendeley.com/datasets/btchxktzyw/1, the updated (version 2) can also be found in https://data.mendeley.com/datasets/btchxktzyw/2, and any subsequ...1278 days ago
1219 days ago
GraphUnzip: Phases an assembly graph using Hi-C data and/or long reads.
...gap-less supercontigs. To demonstrate the efficiency of GraphUnzip, we tested it on a simulated diploid Escherichia coli genome, and on two real datasets for the genomes of the rotife...1196 days ago
IVA: accurate de novo assembly of RNA virus genomes
IVA (Iterative Virus Assembler) designed specifically for read pairs sequenced at highly variable depth from RNA virus samples. We tested IVA on datasets from 140 sequenced samples fro...1059 days ago
QuasiModo - Quasispecies Metric Determination on Omics
...of two lab strains in different abundance ratios. This tool can also be used to evaluate assemblies and variant calling results on other similar datasets. https://academic.oup.com/bi...1056 days ago
973 days ago
RNA-seq workflow: gene-level exploratory analysis and differential expression
...conductor packages. We will start from the FASTQ files, show how these were quantified to the reference transcripts, and prepare gene-level count datasets for downstream analysis. We w...951 days ago
ncbi-datasets-cli -- Quickstart: command line tools !
Install and use the NCBI Datasets command line tools The NCBI Datasets datasets command line tools are datasets and dataformat . Use datasets...a download: https://anaconda.org/conda-forge/ncbi-datasets-cli Buld Download htt...892 days ago