Converts bam or cram files to fastq format and does quality control.
☆31Jan 22, 2026Updated 2 months ago
Alternatives and similar repositories for bamtofastq
Users that are interested in bamtofastq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.☆34Jun 3, 2025Updated 10 months ago
- Nextflow pipeline to convert VCF files into MAF files.☆10Dec 12, 2025Updated 4 months ago
- Pipeline to generate variant catalogues, a list of variants and their frequencies in a population, from whole genome sequences.☆13Jun 3, 2025Updated 10 months ago
- A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Remo…☆24Nov 20, 2025Updated 4 months ago
- A VSCode extension pack for nf-core developers.☆15Mar 7, 2025Updated last year
- Deploy open-source AI quickly and easily - Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Pipeline to fetch metadata and raw FastQ files from public databases☆190Feb 8, 2026Updated 2 months ago
- Precision HLA typing from next-generation sequencing data☆79Apr 2, 2026Updated last week
- Nanopore demultiplexing, QC and alignment pipeline☆223Nov 20, 2025Updated 4 months ago
- nf-core/phyloplace is a bioinformatics best-practice analysis pipeline that performs phylogenetic placement with EPA-NG.☆12Nov 20, 2025Updated 4 months ago
- a novel next-generation sequencing simulator using position and genomic contexts based error profiles☆13Dec 18, 2020Updated 5 years ago
- Call and score variants from WGS/WES of rare disease patients.☆116Apr 8, 2026Updated last week
- Recommendations to contenarized your bioinformatics software☆12May 30, 2018Updated 7 years ago
- A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM (syndip) or other custom datasets☆13Apr 2, 2026Updated last week
- Simple bacterial assembly and annotation pipeline☆85Mar 24, 2026Updated 3 weeks ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Nascent Transcription Processing Pipeline☆22Nov 20, 2025Updated 4 months ago
- A pipeline for comprehensive genomic analyses of Mycobacterium tuberculosis with a focus on clinical decision making as well as research☆19Jan 8, 2026Updated 3 months ago
- Analysis pipeline for the identification of viral integration events in genomes using a chimeric read approach.☆18Jun 3, 2025Updated 10 months ago
- A nextflow pipeline which integrates multiple omic data streams and performs coordinated analysis☆11May 9, 2024Updated last year
- ☆13Feb 11, 2026Updated 2 months ago
- Dedicated QC-only pipeline for sequencing data. The pipeline will run a (potentially large) set of QC tools and can output global and gro…☆24Apr 8, 2026Updated last week
- Assembly and intrahost / low-frequency variant calling for viral samples☆15Feb 12, 2020Updated 6 years ago
- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing☆558Updated this week
- Pipeline to produce consensus reads using unique molecular indexes/barcodes (UMIs)☆27Apr 2, 2026Updated last week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- CAGE-sequencing analysis pipeline with trimming, alignment and counting of CAGE tags.☆11Mar 31, 2026Updated 2 weeks ago
- StackStorm packs to automate sequencing center operations☆10Dec 6, 2022Updated 3 years ago
- ATAC-seq peak-calling and QC analysis pipeline☆220Mar 30, 2026Updated 2 weeks ago
- A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.☆40Nov 20, 2025Updated 4 months ago
- RNA-seq analysis pipeline for detection of gene-fusions☆173Mar 18, 2026Updated 3 weeks ago
- Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq☆91Updated this week
- A very simple BLAST filtering pipeline☆19Mar 28, 2014Updated 12 years ago
- Automatically source dotenv files into your Nextflow scope☆10Mar 27, 2026Updated 2 weeks ago
- Deep neural network learning to transform point clouds to their corresponding mesh☆28Feb 28, 2023Updated 3 years ago
- Deploy open-source AI quickly and easily - Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Pipeline for the identification of (coding) gene structures in draft genomes.☆36May 9, 2024Updated last year
- International BioHackathon Directory of Events, Projects and Communities☆12Mar 24, 2026Updated 3 weeks ago
- rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis☆63Jun 3, 2025Updated 10 months ago
- An analysis pipeline for Nanostring nCounter expression data.☆18Jan 30, 2026Updated 2 months ago
- SQL support plugin for Nextflow☆32Sep 15, 2025Updated 6 months ago
- Influenza genome analysis Nextflow workflow☆25Mar 24, 2026Updated 3 weeks ago
- ChIP-seq peak-calling, QC and differential analysis pipeline.☆235Apr 8, 2026Updated last week