4364fc41dc2b231493d486c529b80182 *DESCRIPTION
9345c632a3f6eafee6f99590af83cb11 *NAMESPACE
8b526a27c48b0a74dadc35975c342f6b *NEWS.md
e73d99742effb8bae8a45ed394f7977c *R/AbForests_AntibodyForest.R
ed72fd295542859bb8bfa77ea0023e7f *R/AbForests_CompareForests.R
f3c8bba8fcc3906ff8c23f9cc4f24536 *R/AbForests_ConvertStructure.R
5b14be381c3522d34d7c8a2667adbc1e *R/AbForests_CsvToDf.R
dbe352b77605475c60644231e60ec692 *R/AbForests_ForestMetrics.R
7a6f42a7dc2e47c8d7bf34aef2e313c6 *R/AbForests_PlotGraphs.R
fa7d30971a78653b2c8c48180f46b1ef *R/AbForests_PlyloToMatrix.R
3bb881b6fea868fa0957360d54c8fe1c *R/AbForests_RemoveNets.R
1efa4b2375ae3056e589f80c86f1798c *R/AbForests_SubRepertoiresByCells.R
14640d367455fdfdacd9e4db0ca812c2 *R/AbForests_SubRepertoiresByUniqueSeq.R
93d30c9b398be54bb234d7d4fcbccc89 *R/AbForests_UniqueAntibodyVariants.R
556d8bc4b310be9b5264835a3faf4de5 *R/AbForests_data.R
50922049b263e6bff74260ea85801e2c *R/AbForests_internal.R
3e298a41e61abb1f081703e31a3bf2f1 *R/Echidna_Internal_functions.R
d77e781f8570e9753d0f76503019f709 *R/Echidna_data.R
b7165f63ac8093017fca7edafb0825a2 *R/Echidna_other_functions.R
50d64edfa61d3f9f977a0aa463864d0f *R/Echidna_simulate_repertoire.R
6b0e52d41aa1c00a37b2bc0aa7df2e44 *R/Echidna_vae_generate.R
d426bde298042f9ec1c4a0028f61cb56 *R/Echidna_vae_internal_functions.R
546a52d7c5c5684a793771a607f8c634 *R/GEX_DEgenes.R
9b053e94b3c01c78de060953b9036791 *R/GEX_DEgenes_persample.R
98f4189ebc34ae984d545a922c702217 *R/GEX_GOterm.R
82c937ccb26b62ed842ee4c853e77e14 *R/GEX_GSEA.R
8560e21e3fe64340bc2242d03aa3a91d *R/GEX_clonotype.R
935580d7551fbd42e193297c61b29cb3 *R/GEX_cluster_genes.R
d6c21fb579e75f15f6c110e7d02b08ce *R/GEX_cluster_genes_heatmap.R
ee748b44b2430e712d2e96ddad66d4c4 *R/GEX_cluster_membership.R
ad84eb8771474ad3ba6630f342d14aad *R/GEX_coexpression_coefficient.R
e41ec0260d6e3aa1cf503ee0b76f091c *R/GEX_dottile_plot.R
5f857d8c5f495c28f575b5028ca65ec9 *R/GEX_heatmap.R
2a999a47f6722a55b1db91052da6da97 *R/GEX_pairwise_degs.R
89fc4baa1f6ac03ef5864150dbdc3a77 *R/GEX_phenotype.R
042d606f59278627be6d08f60eff0d32 *R/GEX_phenotype_per_clone.R
2f9182b047c8361b9a2d74623fe105f6 *R/GEX_proportions_barplot.R
de8860047db544f061e21fef71e9e6a5 *R/GEX_scatter_coexpression.R
854cd5798d14f048e222ee2672125dc5 *R/GEX_topN_DE_genes_per_cluster.R
5e8a7b9ef79925ec00e587d1c59732a6 *R/GEX_visualize_clones.R
4bda39964827cb18ea4decdfa84fa810 *R/GEX_volcano.R
20e27e08f7e98417a011943ea67a4fa0 *R/PlatypusDB_AIRR_to_VGM.R
f6bf565dd8cb18e3a7e479eb9b9f4b11 *R/PlatypusDB_VGM_to_AIRR.R
12b114cb34e62cf46cca5370fb40a87c *R/PlatypusDB_fetch.R
3f245bc400fe3fd62278726c38f6a05f *R/PlatypusDB_find_CDR3s.R
d4c6779bc4aca554ed94181e67d8eb9a *R/PlatypusDB_list_projects.R
d6120bc1b9d74d1f280490684760d74c *R/PlatypusDB_load_from_disk.R
bf3805e044a17682a149a394be9254ed *R/Platypus_data.R
f428b081cd416a7cf276b515eca03142 *R/VDJ_GEX_clonal_lineage_clusters.R
4bb8efe97b80a0b466714eda5bd5851e *R/VDJ_GEX_clonotype_clusters_circos.R
1b8d8cb14062e7eca934516eea0f2729 *R/VDJ_GEX_expansion.R
3b4b29dca14bf3b7fb300cf4d0a0752f *R/VDJ_GEX_integrate.R
9a8560181db8a6a8b94af42b0d5dadd3 *R/VDJ_GEX_matrix.R
5e47511eca5a44c3bced79de222a2a3e *R/VDJ_GEX_overlay_clones.R
cabc9223c58c7a1bd891b54d2691dca9 *R/VDJ_GEX_stats.R
c96073068635453eff39903b7bc11033 *R/VDJ_VJ_usage_circos.R
1ae7ad8bb34c6d7819bc13b35772c6dd *R/VDJ_Vgene_usage.R
b45a79331be8cb2c065d6bb58264b22d *R/VDJ_Vgene_usage_barplot.R
dd757b41854d266a27e50f64ba9e6c51 *R/VDJ_Vgene_usage_stacked_barplot.R
b05a9bcb359166a525a639564b25ddba *R/VDJ_abundances.R
159f8ae8a7d0a81144c36caf6994636d *R/VDJ_alpha_beta_Vgene_circos.R
2b1f2dce01fd9d3e4b58c41c2f38dbbe *R/VDJ_analyze.R
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c36bc332770413a4515f37538d61c0bd *R/VDJ_assemble_for_PnP.R
786727994119f209389585a576b41744 *R/VDJ_bulk_to_vgm.R
1f127762c401a874f02041ecc31ba63b *R/VDJ_call_MIXCR.R
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9b92b27e93d2c6c397767dfb519322f0 *R/VDJ_clonotype.R
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0bfe81a811d5941a7013e4d3e6814f2d *R/VDJ_contigs_to_vgm.R
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936628f146680f44ff42d2452449c2c9 *R/VDJ_diversity.R
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b5526611ebe3b50efd88a665b40f1b33 *R/VDJ_dynamics.R
5b95ed578ef4c26d1efa8dfc2bc012c4 *R/VDJ_expand_aberrants.R
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873693f8484ba4470cb76e57f071f970 *R/VDJ_get_public.R
78fdd4ffd185de98b48186874f49eb9e *R/VDJ_isotypes_per_clone.R
2a03fee1a7e7f5578e514638241d4602 *R/VDJ_logoplot_vector.R
dc156a3c42c8e09a05739e05b2345377 *R/VDJ_network.R
72324ad393d9b5293c742d89e94a0954 *R/VDJ_overlap_heatmap.R
4cbd0e55d8b0953a185b223f326c03c2 *R/VDJ_per_clone.R
b557bfee83a58f4b0a1fdff8f20384ab *R/VDJ_phylogenetic_trees.R
09d283b4bb39368d5fdc0580ffe3dbbd *R/VDJ_phylogenetic_trees_plot.R
5f145c7abd1c110559a6201e752ef007 *R/VDJ_plot_SHM.R
4f97e507142cc789ac1b9b3210f08cfa *R/VDJ_reclonotype_list_arrange.R
8f39e93057c207c83dd9a1fe28070496 *R/VDJ_tree.R
36ae860484bc2e496a691783ff269896 *R/VDJ_variants_per_clone.R
fe52f9ec9a0af45beb748d6744bd43a2 *R/VGM_expand_featurebarcodes.R
e360247f652ea501d777d36bb1dbdcdb *R/VGM_expanded_clones.R
2e426f1c574836768f2267af2b7e3e66 *R/VGM_integrate.R
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be251055c010eb6a8301ea30597403bc *R/call_MIXCR.R
c121fe0fde2a1d1fee02757e88bad45e *README.md
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131e723ca1b0cae510ac807d9ce0442c *data/hum_b_h.rda
cbc79669a822bd308109f0d5b990dfe4 *data/hum_b_l.rda
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790205cf751a7934bcfda0bec93318a1 *inst/doc/PlatypusV3_agedCNS.Rmd
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57684693711d86a7b8595e4fb3b8d409 *man/AbForests_CompareForests.Rd
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7add27e9966139ee2dd579d8efffc999 *man/AbForests_CsvToDf.Rd
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cd73f9971644274326793f5269a093f5 *man/AbForests_PlotGraphs.Rd
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2c677493a7ce96d2f65dc1a556e58263 *man/AbForests_SubRepertoiresByCells.Rd
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9a16bb823507ded1b7dfb71ea8b7f7cb *man/AbForests_UniqueAntibodyVariants.Rd
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1dea466419c16e0238248b6d3532b80b *man/Echidna_simulate_repertoire.Rd
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cccdc3dccceca95ba5670ffb89b2ceca *man/GEX_GOterm.Rd
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4e0620d2d47b639a06f0bc5d4610df23 *man/GEX_coexpression_coefficient.Rd
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2f6744bd684e217230c3e64c4d3e455f *man/GEX_phenotype.Rd
9be97fcc8d59b7b7fec7d22cf72cc566 *man/GEX_phenotype_per_clone.Rd
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3f0533127bbdfc7a1c9b7a11bcfca577 *man/GEX_scatter_coexpression.Rd
7be080833590c50997d9707abe0e9d1f *man/GEX_topN_DE_genes_per_cluster.Rd
13f4a475cc03bcd0e0974448a89550e2 *man/GEX_visualize_clones.Rd
d4464a4247eba1d0353aa637bc57bab6 *man/GEX_volcano.Rd
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e89940893db0abc0e59d4c696c4d38a9 *man/VDJ_Vgene_usage.Rd
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28a3a28bd72aa37b18fee390864e211d *man/VDJ_alpha_beta_Vgene_circos.Rd
46b1647ff3e30e4526736b2fb5c5eb0e *man/VDJ_analyze.Rd
4616644165f7e5447126bad62e517898 *man/VDJ_antigen_integrate.Rd
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254ed35b260684aaeeeb0a00b4327eee *man/VDJ_call_MIXCR.Rd
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605f0b3ec359939e8d8deffbdc8429cf *man/hotspot_df.Rd
ec12019e31ce818815facfec25001dee *man/hum_b_h.Rd
6b971ffd379ec847b904334123c945b4 *man/hum_b_l.Rd
47dc8f532812c89c0125c7e998cc03dd *man/hum_t_h.Rd
fc1079c1c6a828990e5f9882c3d68eea *man/hum_t_l.Rd
921411169d155ae03c69c6c74dac1a94 *man/iso_SHM_prob.Rd
e4deb2b4d5399b1a52b4a849f7f1395f *man/mus_b_h.Rd
1bcd3b95923f08d6fa367ee6c0dee219 *man/mus_b_l.Rd
2d5a3e049245448f1a5d5db0a709cbdf *man/mus_b_trans.Rd
7687a0d6886a28db7ccb1571642f23bc *man/mus_t_h.Rd
5b259f4645e4eb4e86fd56d4e6bab7cb *man/mus_t_l.Rd
0bb3d79452e0fd1ec05a7bbd1ad35e9a *man/no.empty.node.Rd
74f6ba23455dd63f85e43400229bfbe4 *man/one_spot_df.Rd
b5e70e945bd968bdc8ad2fc9cdf6acb0 *man/pheno_SHM_prob.Rd
cb863614750956e342650fd0b78999d4 *man/select.top.clone.Rd
b8136766b8542d25f9b0324b52ee2674 *man/small_vgm.Rd
60f322cbff0271e5506031b63ec927f7 *man/special_v.Rd
cad2cb5bd57edcb229ae92639b5573a6 *man/trans_switch_prob_b.Rd
711f352b9b89aad4e927f3a329c68412 *man/trans_switch_prob_t.Rd
79e6e44d2e50299a532e6e0f4ec5e6a5 *man/umap.top.highlight.Rd
f242129d7b366213b5400f55c3fc6bc4 *man/vdj_length_prob.Rd
790205cf751a7934bcfda0bec93318a1 *vignettes/PlatypusV3_agedCNS.Rmd
