Index of /kundaje/atwang/encode_scatac_manual/adult_cardiac_analyses/workflow/scripts

[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory  -  
[DIR]allele_specific/2024-03-18 20:48 -  
[ ]archr_build.R2022-09-02 00:16 3.3K 
[ ]archr_build_group.R2022-11-12 20:39 3.7K 
[ ]archr_embed.R2022-12-08 05:49 6.1K 
[ ]archr_install_bsgenome.R2022-09-01 23:58 503  
[ ]archr_plot_genes.R2022-10-27 05:58 1.7K 
[ ]archr_rna_clustering.R2022-10-21 22:37 2.8K 
[ ]archr_rna_labeling.R2022-11-14 13:45 2.3K 
[ ]archr_write_data.R2022-08-16 00:01 2.1K 
[ ]archr_write_qc.R2022-09-02 05:12 1.2K 
[ ]collate_pseudobulks.R2023-06-12 17:21 2.1K 
[ ]count_bc_multiplexing.R2022-10-25 22:59 1.0K 
[TXT]export_atac_embeddings.py2022-08-16 00:01 1.1K 
[TXT]export_atac_labels.py2022-08-16 00:01 1.0K 
[TXT]export_atac_markers.py2022-08-16 00:01 2.5K 
[TXT]export_atac_metadata.py2022-08-16 00:01 2.7K 
[TXT]export_embeddings.py2023-03-28 22:13 2.9K 
[TXT]export_l1_labels.py2023-03-23 23:53 1.1K 
[TXT]export_l1_markers.py2023-03-24 15:40 2.7K 
[TXT]export_metadata.py2023-03-29 03:33 5.6K 
[TXT]export_rna_embeddings.py2022-08-16 00:01 1.1K 
[TXT]export_rna_labels.py2022-08-16 00:01 1.0K 
[TXT]export_rna_markers.py2022-08-16 00:01 2.3K 
[TXT]export_rna_metadata.py2022-08-16 00:01 2.8K 
[TXT]get_bam_atac_url.py2024-03-20 23:15 1.4K 
[TXT]get_dataset_info.py2023-03-23 23:53 972  
[TXT]get_expression_raw_url.py2022-09-01 18:30 1.1K 
[TXT]get_expression_url.py2022-09-01 18:30 1.1K 
[TXT]get_fragments_url.py2022-08-16 00:01 1.2K 
[ ]pseudobulk_samples.R2023-07-31 23:27 1.6K 
[ ]run_deseq.R2023-07-31 23:27 3.3K 
[ ]run_deseq_lv.R2023-08-08 01:12 3.1K 
[ ]run_deseq_sva.R2023-07-31 23:27 3.6K 
[ ]run_deseq_sva_lv.R2023-08-08 01:12 2.9K 
[ ]seurat_add_batch_data.R2022-10-25 23:17 1.6K 
[ ]seurat_add_multiplexing_data.R2022-10-25 23:20 1.4K 
[ ]seurat_build.R2022-09-12 14:52 3.0K 
[ ]seurat_build_reference_ellinor.R2022-09-13 16:40 2.9K 
[ ]seurat_build_reference_kramann.R2022-09-21 21:25 4.2K 
[ ]seurat_build_reference_teichmann.R2022-09-15 19:37 2.3K 
[ ]seurat_cluster_l2.R2022-09-27 01:41 2.8K 
[ ]seurat_cluster_rna.R2022-10-20 17:35 1.3K 
[ ]seurat_clusters_to_groups.R2023-04-03 18:27 2.6K 
[ ]seurat_convert_h5ad.R2022-09-21 01:18 602  
[ ]seurat_convert_h5ad_kramann.R2022-09-21 19:06 937  
[ ]seurat_countsplit.R2022-10-18 22:54 1.8K 
[ ]seurat_doublets_rna.R2022-11-10 23:17 3.3K 
[ ]seurat_embed_all.R2023-03-23 23:53 2.1K 
[ ]seurat_embed_test.R2022-12-20 00:59 2.8K 
[ ]seurat_import_atac_embeddings.R2023-03-29 03:02 2.2K 
[ ]seurat_import_seq_embeddings.R2023-01-16 21:13 4.6K 
[ ]seurat_install_azimuth.R2022-09-15 03:03 562  
[ ]seurat_install_doubletfinder.R2022-09-07 20:47 482  
[ ]seurat_install_seuratdisk.R2022-09-15 17:18 483  
[ ]seurat_integrate_l2.R2022-09-26 21:04 3.6K 
[ ]seurat_integrate_rna.R2022-10-19 17:56 2.9K 
[ ]seurat_integrate_subgroups.R2023-01-05 19:40 5.5K 
[ ]seurat_integrate_subgroups_qc_extras.R2023-01-27 06:51 1.8K 
[ ]seurat_integrate_subgroups_unified.R2023-01-27 03:57 5.5K 
[ ]seurat_integrate_supergroups.R2023-01-27 03:04 5.5K 
[ ]seurat_integrate_transfers.R2022-09-15 22:31 869  
[ ]seurat_integration_qc.R2023-04-01 17:18 5.2K 
[ ]seurat_l2_labels_to_subgroups.R2022-09-30 14:59 1.5K 
[ ]seurat_label_subgroup.R2022-11-14 13:45 1.7K 
[ ]seurat_load_subclusters.R2023-01-30 23:42 1.8K 
[ ]seurat_load_transfer_labels.R2022-09-21 21:43 3.6K 
[ ]seurat_name_1.R2022-09-27 17:11 1.6K 
[ ]seurat_name_2.R2022-09-30 03:56 1.7K 
[ ]seurat_name_group_1.R2022-12-20 07:41 2.9K 
[ ]seurat_name_subclusters.R2023-01-30 19:01 2.9K 
[ ]seurat_name_subclusters_supergroup.R2023-02-17 20:33 3.0K 
[ ]seurat_named_cluster_markers.R2023-01-15 18:43 2.1K 
[ ]seurat_named_subcluster_markers.R2023-01-15 18:43 2.1K 
[ ]seurat_plot_cluster_markers.R2022-11-11 22:33 1.5K 
[ ]seurat_plot_cm.R2022-09-23 22:01 2.4K 
[ ]seurat_plot_genes.R2022-12-24 22:11 2.3K 
[ ]seurat_plot_subcluster_genes.R2023-01-28 19:08 2.5K 
[ ]seurat_plot_subcluster_markers.R2023-01-28 08:00 2.2K 
[ ]seurat_soupx_filtered.R2023-11-29 17:29 3.0K 
[ ]seurat_soupx_rna.R2022-11-11 22:02 4.9K 
[ ]seurat_subcluster.R2022-09-28 19:18 2.2K 
[ ]seurat_subcluster_2.R2023-01-27 07:02 4.4K 
[ ]seurat_subcluster_cleanup.R2023-04-02 23:58 3.2K 
[ ]seurat_subcluster_supergroup.R2023-04-02 00:17 3.8K 
[ ]seurat_subcluster_unified.R2023-04-02 00:17 4.1K 
[ ]seurat_subclusters_supergroup_to_groups.R2023-02-17 22:37 2.8K 
[ ]seurat_subclusters_to_groups.R2023-01-30 23:42 2.3K 
[ ]seurat_transfer_azimuth_rna.R2022-09-20 18:05 1.7K 
[ ]seurat_transfer_ellinor_rna.R2022-09-15 19:52 2.3K 
[ ]seurat_transfer_kramann_rna.R2022-09-21 21:45 1.7K 
[ ]seurat_transfer_teichmann_rna.R2022-09-15 23:34 2.3K 
[ ]seurat_visualize_seq_emb.R2022-11-30 23:00 2.0K 
[ ]seurat_write_embeddings.R2023-03-29 03:23 2.8K 
[ ]seurat_write_l1_markers.R2023-04-04 02:47 963  
[ ]seurat_write_metadata.R2022-10-20 22:33 535  
[ ]seurat_write_rna_all.R2023-03-22 16:48 1.8K 
[ ]seurat_write_rna_soupx.R2023-11-29 22:45 661  
[TXT]transport_rna_clusters.py2022-08-16 00:01 1.3K 
[TXT]write_amulet_barcodes.py2022-09-07 21:32 1.5K 
[TXT]write_atac_qc.py2022-09-02 19:58 4.6K 
[TXT]write_atac_qc_extended.py2022-12-08 05:15 5.4K 
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