QuasR: Quantification and annotation of short reads in R
...ackages (such as IRanges (Lawrence et al. 2013) and Rsamtools) and external software (e.g. bowtie,...e aims to cover the whole analysis workflow of typical high throughput sequencing experiments, starting from th...1054 days ago
RNA-Seq differential expression work flow using DESeq2
One of the aim of RNAseq data analysis is the detection of differentially expressed genes. The package DESeq2 provides methods to test for differential expression analysis.1044 days ago
1020 days ago
1019 days ago
RNA-seq workflow: gene-level exploratory analysis and differential expression
Here we walk through an end-to-end gene-level RNA-seq differential expression workflow using Bioconductor packages. We will start from the FASTQ files, show how these were quanti...997 days ago
934 days ago
UniqueKmer: Generate unique KMERs for every contig in a FASTA file
Generate unique k-mers for every contig in a FASTA file. Unique k-mer is consiste...which is an ultra-fast tool to identify and visualize microbial sequences from sequencing data. https://github.com/Ope...928 days ago
895 days ago
Smudgeplot: Inference of ploidy and heterozygosity structure using whole genome sequencing data
This tool extracts heterozygous kmer pairs from kmer count databases and performs gymnastics with them. We are able to disentangle genome structure by comparing the sum o...858 days ago
851 days ago