Samtools fastx: extract FASTA or FASTQ from alignment files

Metadata

Links

• bio.tools: SAMtools

EDAM Operations

• Filtering
• Visualisation
• Parsing
• Sorting
• Indexing
• Formatting
• Editing

EDAM Topics

• Mapping
• Rare diseases
• Sequence analysis
• Sequencing

Observed Tool Versions

Within GTN tutorials

1.15.1+galaxy2

• UseGalaxy.eu ⭐️
• UseGalaxy.fr ⭐️
• UseGalaxy.org (Main) ⭐️
• UseGalaxy.org.au ⭐️
• MISSISSIPPI

1.9+galaxy1

• UseGalaxy.eu ⭐️
• UseGalaxy.fr ⭐️
• UseGalaxy.org (Main) ⭐️
• UseGalaxy.org.au ⭐️
• Galaxy@AuBi
• UseGalaxy.be
• UseGalaxy.no

Relevant Tutorials

• Assembly / Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads
• Microbiome / Pathogen detection from (direct Nanopore) sequencing data using Galaxy - Foodborne Edition
• Sequence analysis / Removal of human reads from SARS-CoV-2 sequencing data