[
    {
        "id": "moments2Dsfs",
        "name": "plot 2D sfs",
        "article": "10.1534\/genetics.117.200493",
        "website": "https:\/\/bitbucket.org\/simongravel\/moments\/",
        "git": "https:\/\/bitbucket.org\/simongravel\/moments\/src\/master\/",
        "description": "moments implements methods for demographic history and selection inference from genetic data, based on diffusion approximations to the allele frequency spectrum.",
        "version": "1.1.16",
        "documentation": "https:\/\/moments.readthedocs.io\/",
        "multiqc": "custom",
        "commands": [
            {
                "name": "moments2Dsfs",
                "command": "",
                "category": "genet_pop",
                "output_dir": "moments2Dsfs",
                "inputs": [
                    {
                        "name": "vcfFile",
                        "type": "vcf_file",
                        "description": "A vcf file to compute a SFS from"
                    },
                    {
                        "name": "popmap_file",
                        "type": "popmap",
                        "file": "",
                        "description": "Path to tsv file with samples group"
                    }
                ],
                "outputs": [
                    {
                        "name": "sfsplotDone",
                        "type": "txt",
                        "file": "sfsplotDone.txt",
                        "description": "All pairewise Heatmap of single 2d SFS were ploted"
                    }
                ],
                "options": [
                    {
                        "name": "moments2Dsfs_polarized",
                        "prefix": null,
                        "type": "checkbox",
                        "value": false,
                        "label": "If True, the data are assumed to be correctly polarized by 'outgroup_allele'"
                    },
                    {
                        "name": "moments2Dsfs_projections",
                        "prefix": "--projections",
                        "type": "numeric",
                        "value": 20,
                        "min": 10,
                        "max": 1000,
                        "step": 1,
                        "label": "sample sizes to project down to for each  population."
                    }
                ]
            }
        ],
        "install": [],
        "citations": {
            "moments": [
                "Jouganous, J., Long, W., Ragsdale, A. P., & Gravel, S. (2017). Inferring the joint demographic history of multiple populations: beyond the diffusion approximation. Genetics, 206(3), 1549-1567. doi: 10.1534\/genetics.117.200493"
            ]
        },
        "yaml": "{\n  id: moments2Dsfs,\n  name: plot 2D sfs,\n  article: \"10.1534\/genetics.117.200493\",\n  website: \"https:\/\/bitbucket.org\/simongravel\/moments\/\",\n  git: \"https:\/\/bitbucket.org\/simongravel\/moments\/src\/master\/\",\n  description: \"moments implements methods for demographic history and selection inference from genetic data, based on diffusion approximations to the allele frequency spectrum.\",\n  version: \"1.1.16\",\n  documentation: \"https:\/\/moments.readthedocs.io\/\",\n  multiqc: \"custom\",\n  commands:\n    [\n      {\n        name: moments2Dsfs,\n        command: \"\",\n        category: \"genet_pop\",\n        output_dir: moments2Dsfs,\n        inputs: [\n               { name: vcfFile, type: \"vcf_file\", description: \"A vcf file to compute a SFS from\"},\n               { name: popmap_file, type: \"popmap\", file: \"\", description: \"Path to tsv file with samples group\"}\n             ],\n        outputs: [{ name: sfsplotDone, type: \"txt\",file: \"sfsplotDone.txt\",  description: \"All pairewise Heatmap of single 2d SFS were ploted\" }],\n        options: [\n          {\n              name: moments2Dsfs_polarized,\n              prefix: ,\n              type: checkbox,\n              value: FALSE,\n              label: \"If True, the data are assumed to be correctly polarized by 'outgroup_allele'\",\n          },\n          {\n              name: moments2Dsfs_projections,\n              prefix: --projections,\n              type: numeric,\n              value: 20,\n              min: 10,\n              max: 1000,\n              step: 1,\n              label: \"sample sizes to project down to for each  population.\",\n          },\n        ],\n      },\n    ],\n  install:\n    {\n      # moments: [\n      #   'pip3 install cython==0.29.0',\n      #   'pip3 install git+https:\/\/bitbucket.org\/simongravel\/moments.git '\n      # ],\n    },\n  citations:\n    {\n     moments: [\n      \"Jouganous, J., Long, W., Ragsdale, A. P., & Gravel, S. (2017). Inferring the joint demographic history of multiple populations: beyond the diffusion approximation. Genetics, 206(3), 1549-1567. doi: 10.1534\/genetics.117.200493\"\n     ],\n    },\n}\n"
    }
]