sequana pipeline to perform parallel fastqc and summarize results with multiqc plot

Python code to compute adatper content in reads, kmer content, per-base-GC content (at a specific position in a read alignment, against reference genome), per base NC content (at a specific position in a read alignment against the reference genome), per base seq quality (across aligned reads), per base sequence content, per base quality scores, …

Estimate fastq-formatted read abundace in RNA-Seq analysis with Kallisto

A Snakemake workflow for quality control assessment of Illumina NGS data using FastQC and MultiQC

Map and post-process your bams for SNP calling

A workflow automation script: demultiplex the library sequence, run quality checks, deliver to archiving and processing afterwards

A Snakemake Workflow for using PolyA_DB and UCSC LiftOver with CellRanger

Snakemake workflow for Salmon quantification and FastQC quality controls

A python package for working with inputs to and outputs from the toil-rnaseq pipeline

Standard RNAseq analysis pipeline using snakemake.

Perform basic QC over sequenced data

This is a Flask-based web application for generating quality control (QC) reports for Next-Generation Sequencing (NGS) data. Users can upload NGS files and receive a detailed QC report through an intuitive interface for easy data submission and visualization.

Tools to analyze fasta or fastaq files with python.

A nextflow pipeline for analysis and visualisation of NGS data using FastQC and Python Ploty Dash.

Count your fastq-formatted rna-seq reads with Salmon