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nf-core/pathogensurveillance
1.1.0
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biosurveillance pathogen-identification
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Surveillance of pathogens using population genomics and sequencing
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nf-core/phageannotator
0.0.0-4fe12b8
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n/a
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Pipeline for identifying, annotation, and quantifying phage sequences in (meta)-genomic sequences.
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nf-core/phaseimpute
1.1.0
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genomics genotype imputation low-pass-sequencing
+1
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A bioinformatics pipeline to phase and impute genetic data
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nf-core/phyloplace
2.3.0
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evolution evolutionary-tree phylogenetic-placement phylogenetics
+2
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nf-core/phyloplace is a bioinformatics best-practice analysis pipeline that performs phylogenetic placement with EPA-NG.
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nf-core/pixelator
5.0.3
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molecular-pixelation pixelator pixelgen-technologies proteins
+2
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Pipeline to generate Proximity Network Assay data with Pixelator (Pixelgen Technologies AB)
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nf-core/plasmodiumdrugres
0.0.0-a333327
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drug-resistance frequency-estimation genomics haplotypes
+6
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Pipeline for analyzing drug resistance markers from Plasmodium microhaplotype data. Translates variants into amino acid changes at drug resistance loci and estimates allele frequencies and prevalences at both single-locus and multi-locus levels. Microhaplotype data can be supplied in the form of an allele table or a PMO file.
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nf-core/proteinannotator
1.1.0
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annotation proteomics
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Generation of sequence-level annotations for amino acid sequences
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nf-core/proteinfamilies
2.6.0
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metagenomics protein-families
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Generation and updating of protein families
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nf-core/proteinfold
2.0.0
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alphafold2 colabfold esmfold protein-fold-prediction
+3
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Protein 3D structure prediction pipeline
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nf-core/proteogenomicsdb
1.0.0
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cosmic gnomad protein-databases proteogenomics
+2
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The ProteoGenomics database generation workflow creates different protein databases for ProteoGenomics data analysis.
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nf-core/proteomicslfq
1.0.0
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label-free-quantification openms proteomics
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Proteomics label-free quantification (LFQ) analysis pipeline
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nf-core/provenancereport
0.0.0-895e454
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n/a
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A simple provenance reporting pipeline
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nf-core/quantms
1.2.0
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dia lfq mass-spec mass-spectrometry
+4
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Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.
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nf-core/radseq
0.0.0-d3d80e6
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n/a
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Variant-calling pipeline for Restriction site-associated DNA sequencing (RADseq).
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nf-core/rangeland
1.0.0
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earth-observation landsat satellite-imagery spectral-unmixing
+2
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Pipeline for remotely sensed imagery. The pipeline processes satellite imagery alongside auxiliary data in multiple steps to arrive at a set of trend files related to land-cover changes.
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nf-core/raredisease
3.1.2
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diagnostics rare-disease snv structural-variants
+4
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Call and score variants from WGS/WES of rare disease patients.
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nf-core/rarevariantburden
0.0.0-3ba9926
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burden-test cocorv public-data-as-controlset rarevariant
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Pipeline for performing consistent summary count based rare variant burden test, which is useful when we only have sequenced cases data. For example, we can compare the cases against public summary count data, such as gnomAD.
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nf-core/readsimulator
1.0.1
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n/a
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A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
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nf-core/references
0.1.0
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genome references reproducibility
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nf-core/references is a bioinformatics pipeline that build references, for multiple use cases
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nf-core/reportho
1.1.0
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ortholog
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nf-core pipeline for comparative analysis of ortholog predictions
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