[{"name":"cell_filtering/713946/output.loom","file_size":"43.7MB","run_name":"Cell filtering #1","run_attrs":"\u003cdiv class='flex flex-wrap gap-1.5 items-center'\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"discarded_metadata_json\" data-run-param-info-label-value=\"Discarded metadata json\" data-run-param-info-description-value=\"Discarded metadata\" data-run-param-info-value-value=\"{}\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eDiscarded metadata json:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e{}\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"depth\" data-run-param-info-label-value=\"Depth\" data-run-param-info-description-value=\"Minimum depth\" data-run-param-info-value-value=\"4744\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eDepth:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e4744\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"detected_genes\" data-run-param-info-label-value=\"Detected genes\" data-run-param-info-description-value=\"Minimum number of detected genes\" data-run-param-info-value-value=\"1370\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eDetected genes:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e1370\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"mito_content\" data-run-param-info-label-value=\"Mito content\" data-run-param-info-description-value=\"Minimum percentage of mitochondrial genes\" data-run-param-info-value-value=\"0\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eMito content:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e0\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"protein_coding_content\" data-run-param-info-label-value=\"Protein coding content\" data-run-param-info-description-value=\"Minimum percentage of protein-coding genes\" data-run-param-info-value-value=\"80\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eProtein coding content:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e80\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"ribo_content\" data-run-param-info-label-value=\"Ribo content\" data-run-param-info-description-value=\"Minimum percentage of ribosomal genes\" data-run-param-info-value-value=\"0\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eRibo content:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e0\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"manually_discarded_cols\" data-run-param-info-label-value=\"Manually discarded cols\" data-run-param-info-description-value=\"Manually discarded cells\" data-run-param-info-value-value=\"965e724ec0956583bdd72685130bac36a900d9171195579fe233253a3ce1575f\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eManually discarded cols:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e965e724ec0956583bdd72685130bac36a900d9171195579fe233253a3ce1575f\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"nber_manually_discarded_cols\" data-run-param-info-label-value=\"Nber manually discarded cols\" data-run-param-info-description-value=\"Number of manually discarded cells\" data-run-param-info-value-value=\"0\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eNber manually discarded cols:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e0\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"discarded_cols\" data-run-param-info-label-value=\"Discarded cols\" data-run-param-info-description-value=\"Discarded cells\" data-run-param-info-value-value=\"289c5618f0085570ce418cfec8fc89ab8a21ed60792cea0e1a1953dd11b3c3b4\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eDiscarded cols:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e289c5618f0085570ce418cfec8fc89ab8a21ed60792cea0e1a1953dd11b3c3b4\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-blue-100 text-blue-700 border-blue-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"input_matrix\" data-run-param-info-label-value=\"Input matrix\" data-run-param-info-description-value=\"\" data-run-param-info-value-value=\"/matrix\" data-run-param-info-pipeline-run-id-value=\"713945\" data-run-param-info-pipeline-url-value=\"/projects/afe5sh/pipeline_runs\"\u003e\u003cspan class='font-semibold text-blue-800'\u003eInput matrix:\u003c/span\u003e\u003cspan class='text-blue-600'\u003ematrix\u003c/span\u003e\u003c/span\u003e\u003c/div\u003e","nber_cols":2067,"nber_rows":23686,"url":"https://asap.epfl.ch/projects/afe5sh/get_file?filename=cell_filtering%2F713946%2Foutput.loom","url_h5ad":"https://asap.epfl.ch/projects/afe5sh/get_file?filename=cell_filtering%2F713946%2Foutput.h5ad","content":[{"name":"/attrs/LOOM_SPEC_VERSION","nber_cols":1,"nber_rows":1,"data_type":"STRING","imported":false},{"name":"/col_attrs/CellID","nber_cols":2067,"nber_rows":1,"data_type":"STRING","imported":false},{"name":"/col_attrs/_Depth","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Detected_Genes","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Mitochondrial_Content","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Protein_Coding_Content","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Ribosomal_Content","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_StableID","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/matrix","nber_cols":2067,"nber_rows":23686,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/Accession","nber_cols":1,"nber_rows":23686,"data_type":"STRING","imported":false},{"name":"/row_attrs/_Biotypes","nber_cols":1,"nber_rows":23686,"data_type":"DISCRETE","imported":false},{"name":"/row_attrs/_Chromosomes","nber_cols":1,"nber_rows":23686,"data_type":"STRING","imported":false},{"name":"/row_attrs/Gene","nber_cols":1,"nber_rows":23686,"data_type":"STRING","imported":false},{"name":"/row_attrs/Original_Gene","nber_cols":1,"nber_rows":23686,"data_type":"STRING","imported":false},{"name":"/row_attrs/_StableID","nber_cols":1,"nber_rows":23686,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/_Sum","nber_cols":1,"nber_rows":23686,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/_SumExonLength","nber_cols":1,"nber_rows":23686,"data_type":"NUMERIC","imported":false}]},{"name":"gene_filtering/713947/output.loom","file_size":"124MB","run_name":"Normalization #1","run_attrs":"\u003cdiv class='flex flex-wrap gap-1.5 items-center'\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-blue-100 text-blue-700 border-blue-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"input_matrix\" data-run-param-info-label-value=\"Input matrix\" data-run-param-info-description-value=\"\" data-run-param-info-value-value=\"/matrix\" data-run-param-info-pipeline-annot-id-value=\"5285730\" data-run-param-info-pipeline-run-id-value=\"713947\" data-run-param-info-pipeline-url-value=\"/projects/afe5sh/pipeline_runs\"\u003e\u003cspan class='font-semibold text-blue-800'\u003eInput matrix:\u003c/span\u003e\u003cspan class='text-blue-600'\u003ematrix\u003c/span\u003e\u003c/span\u003e\u003c/div\u003e","nber_cols":2067,"nber_rows":22469,"url":"https://asap.epfl.ch/projects/afe5sh/get_file?filename=gene_filtering%2F713947%2Foutput.loom","url_h5ad":"https://asap.epfl.ch/projects/afe5sh/get_file?filename=gene_filtering%2F713947%2Foutput.h5ad","content":[{"name":"/attrs/LOOM_SPEC_VERSION","nber_cols":1,"nber_rows":1,"data_type":"STRING","imported":false},{"name":"/col_attrs/CellID","nber_cols":2067,"nber_rows":1,"data_type":"STRING","imported":false},{"name":"/col_attrs/_clust_1_seurat","nber_cols":2067,"nber_rows":1,"data_type":"DISCRETE","imported":false},{"name":"/col_attrs/_clust_2_seurat","nber_cols":2067,"nber_rows":1,"data_type":"DISCRETE","imported":false},{"name":"/col_attrs/_clust_3_kmeans","nber_cols":2067,"nber_rows":1,"data_type":"DISCRETE","imported":false},{"name":"/col_attrs/_Depth","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Detected_Genes","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_dr_1_umap_2D","nber_cols":2067,"nber_rows":2,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Mitochondrial_Content","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Protein_Coding_Content","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Ribosomal_Content","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_StableID","nber_cols":2067,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/layers/norm_1_asap_seurat","nber_cols":2067,"nber_rows":22469,"data_type":"NUMERIC","imported":false},{"name":"/layers/scaling_1_asap_seurat","nber_cols":2067,"nber_rows":22469,"data_type":"NUMERIC","imported":false},{"name":"/matrix","nber_cols":2067,"nber_rows":22469,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/Accession","nber_cols":1,"nber_rows":22469,"data_type":"STRING","imported":false},{"name":"/row_attrs/_Biotypes","nber_cols":1,"nber_rows":22469,"data_type":"DISCRETE","imported":false},{"name":"/row_attrs/_Chromosomes","nber_cols":1,"nber_rows":22469,"data_type":"STRING","imported":false},{"name":"/row_attrs/_de_1_wilcox_seurat","nber_cols":5,"nber_rows":22469,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/_de_2_wilcox_seurat","nber_cols":5,"nber_rows":22469,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/Gene","nber_cols":1,"nber_rows":22469,"data_type":"STRING","imported":false},{"name":"/row_attrs/Original_Gene","nber_cols":1,"nber_rows":22469,"data_type":"STRING","imported":false},{"name":"/row_attrs/_StableID","nber_cols":1,"nber_rows":22469,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/_Sum","nber_cols":1,"nber_rows":22469,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/_SumExonLength","nber_cols":1,"nber_rows":22469,"data_type":"NUMERIC","imported":false}]},{"name":"parsing/output.loom","file_size":"44.0MB","run_name":"Parsing #1","run_attrs":"\u003cdiv class='flex flex-wrap gap-1.5 items-center'\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"delimiter\" data-run-param-info-label-value=\"Delimiter\" data-run-param-info-description-value=\"\" data-run-param-info-value-value=\",\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eDelimiter:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e,\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"gene_name_col\" data-run-param-info-label-value=\"Gene name col\" data-run-param-info-description-value=\"\" data-run-param-info-value-value=\"first\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eGene name col:\u003c/span\u003e\u003cspan class='text-purple-600'\u003efirst\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"has_header\" data-run-param-info-label-value=\"Has header\" data-run-param-info-description-value=\"\" data-run-param-info-value-value=\"1\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eHas header:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e1\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"file_type\" data-run-param-info-label-value=\"File type\" data-run-param-info-description-value=\"\" data-run-param-info-value-value=\"RAW_TEXT\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eFile type:\u003c/span\u003e\u003cspan class='text-purple-600'\u003eRAW_TEXT\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"nber_cols\" data-run-param-info-label-value=\"Nber cols\" data-run-param-info-description-value=\"\" data-run-param-info-value-value=\"2068\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eNber cols:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e2068\u003c/span\u003e\u003c/span\u003e\u003cspan class='inline-flex items-center px-2 py-0.5 rounded text-xs font-medium border bg-purple-100 text-purple-700 border-purple-200 cursor-pointer' data-controller=\"run-param-info\" data-action=\"click-\u003erun-param-info#toggle\" data-run-param-info-name-value=\"nber_rows\" data-run-param-info-label-value=\"Nber rows\" data-run-param-info-description-value=\"\" data-run-param-info-value-value=\"23686\"\u003e\u003cspan class='font-semibold text-purple-800'\u003eNber rows:\u003c/span\u003e\u003cspan class='text-purple-600'\u003e23686\u003c/span\u003e\u003c/span\u003e\u003c/div\u003e","nber_cols":2068,"nber_rows":23686,"url":"https://asap.epfl.ch/projects/afe5sh/get_file?filename=parsing%2Foutput.loom","url_h5ad":"https://asap.epfl.ch/projects/afe5sh/get_file?filename=parsing%2Foutput.h5ad","content":[{"name":"/attrs/LOOM_SPEC_VERSION","nber_cols":1,"nber_rows":1,"data_type":"STRING","imported":false},{"name":"/col_attrs/CellID","nber_cols":2068,"nber_rows":1,"data_type":"STRING","imported":false},{"name":"/col_attrs/_Depth","nber_cols":2068,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Detected_Genes","nber_cols":2068,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Mitochondrial_Content","nber_cols":2068,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Protein_Coding_Content","nber_cols":2068,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_Ribosomal_Content","nber_cols":2068,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/col_attrs/_StableID","nber_cols":2068,"nber_rows":1,"data_type":"NUMERIC","imported":false},{"name":"/matrix","nber_cols":2068,"nber_rows":23686,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/Accession","nber_cols":1,"nber_rows":23686,"data_type":"STRING","imported":false},{"name":"/row_attrs/_Biotypes","nber_cols":1,"nber_rows":23686,"data_type":"DISCRETE","imported":false},{"name":"/row_attrs/_Chromosomes","nber_cols":1,"nber_rows":23686,"data_type":"STRING","imported":false},{"name":"/row_attrs/Gene","nber_cols":1,"nber_rows":23686,"data_type":"STRING","imported":false},{"name":"/row_attrs/Original_Gene","nber_cols":1,"nber_rows":23686,"data_type":"STRING","imported":true},{"name":"/row_attrs/_StableID","nber_cols":1,"nber_rows":23686,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/_Sum","nber_cols":1,"nber_rows":23686,"data_type":"NUMERIC","imported":false},{"name":"/row_attrs/_SumExonLength","nber_cols":1,"nber_rows":23686,"data_type":"NUMERIC","imported":false}]}]