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Stars
Shiny apps for NGS etc based on reusable components created using Shiny modules
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey and dual-gene plot in high-resolution SVG/PNG format. It also…
SAMap: Mapping single-cell RNA sequencing datasets from evolutionarily distant organisms.
Code to generate reports for use by the NGI in SciLifeLab
An interactive explorer for single-cell transcriptomics data
Add my personal notification sender for Infomentor
A bash script tool suite that interfaces with the infomentor system api
VWorks protocols and other files for the Agilent NGS Workstations at the Genomics facility at SciLifeLab.
Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
Tornado server for tracking samples at NGI Stockholm
nf-core / smartseq2
Forked from icbi-lab/smartseq2_pipelineA pipeline for processing single cell RNA-seq data generated with the SmartSeq2 protocol.
Web application to collect and visualise data across multiple MultiQC runs.
A Python package for clustering of single nucleotide variants from high-through seqencing data.
Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture assays such as Hi-C.
HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Mutation Identification Pipeline. Read the latest documentation:
API libraries, samples, and system images for AIY Projects (Voice Kit and Vision Kit)