Skills tagged "fastq"

ena-database - Access ENA nucleotide sequences and genomics metadata.
genomics bioinformatics ena nucleotide-sequence
★ 0 · Updated 2026-09-18
Retrieves DNA/RNA sequences, raw FASTQ reads, genome assemblies, and metadata from the European Nucleotide Archive via REST APIs and FTP.
⚙ Retrieve nucleotide sequences and reads ⚙ Search samples studies and assemblies ⚙ Download FASTQ files and assemblies
bio-read-qc-adapter-trimming - Remove sequencing adapters from FASTQ files
adapter-trimming cutadapt trimmomatic fastq
★ 2 · Updated 2026-09-15
Remove sequencing adapters from FASTQ files using Cutadapt and Trimmomatic for single-end and paired-end reads.
⚙ Trim adapters using Cutadapt ⚙ Trim adapters using Trimmomatic ⚙ Filter trimmed reads by length
sublong - Align long FASTQ reads to a reference genome with Subread
sublong subread alignment fastq
★ 0 · Updated 2026-09-10
Aligns long FASTQ reads to a reference genome using Subread's long-read aligner, supporting genomic and RNA-seq alignment modes.
⚙ Align long reads to reference ⚙ Run alignment in RNA-seq mode ⚙ Output alignment in BAM format
bio-basecalling - Convert Nanopore signals to nucleotide sequences
nanopore basecalling dorado sequencing
★ 57 · Updated 2026-03-23
Convert raw Nanopore signal data to nucleotide sequences using Dorado basecaller
⚙ convert signal to sequences ⚙ select basecalling model ⚙ detect modified bases
bio-read-qc-quality-reports - FASTQ Quality Reports with FastQC and MultiQC
bioinformatics quality-control fastq sequencing
★ 18 · Updated 2026-02-11
Generate quality reports from FASTQ files using FastQC and aggregate reports with MultiQC
⚙ run FastQC analysis ⚙ generate HTML reports ⚙ aggregate multiple reports
bio-read-qc-quality-reports - FASTQ Quality Analysis with FastQC and MultiQC
bioinformatics quality-control sequencing fastq
★ 602 · Updated 2026-02-11
Generate and interpret quality reports from FASTQ files using FastQC and MultiQC
⚙ run FastQC analysis ⚙ generate MultiQC reports ⚙ extract quality metrics