Pipeline for processing FASTQ data from an Illumina MiSeq to genotype human RNA viruses like HIV and hepatitis C
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Updated
May 27, 2024 - Python
Pipeline for processing FASTQ data from an Illumina MiSeq to genotype human RNA viruses like HIV and hepatitis C
My bioinfo toolbox
A Bioinformatics demo in Python working with FASTQ files and using the Modin library
RNA-Seq Pipeline for processing paired-end FASTQ transcripts generated from Illumina sequencing. The pipeline trims adapter sequences, aligns transcripts to a specified region of interest on the reference genome, and facilitates downstream analysis.
Scipts that I needed to work with FASTA/FASTQ files during my PhD.
SYLENS: Sampling Yielding LEss Noticeable Samples
Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.
ILIAD: A suite of automated Snakemake workflows for processing genomic data for downstream applications
Benchmarking fastq compression with generic (mature) compression algorithms
An unofficial demultiplexing strategy for SPLiT-seq RNA-Seq data
Combining epigenetic modeling with machine learning for colorectal cancer detection
Python package to trim and extract flags from FASTA and FASTQ files.
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