Diffusion scATAC-seq fcead3d81371

Work in progress to have a multi-layer EM classification
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Authored by rgroux on Jul 11 2019, 10:42.

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Work in progress to have a multi-layer EM classification

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rgroux

Jul 11 2019, 10:42

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rgroux

Jul 11 2019, 10:47

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R8820:faf6f1d50a68: 1)ATAC-seq data subsets created for open chromatin and nucleosomes. 2)Code to…

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rgroux committed R8820:fcead3d81371: Work in progress to have a multi-layer EM classification (authored by rgroux).Jul 11 2019, 10:42

Changes (66)

		Path
A	(dir)	scripts/10xgenomics_PBMC_5k_classification_1.save/
P		scripts/10xgenomics_PBMC_5k_classification_1.save/classification_ctcf_motif.R Copied from scripts/10xgenomics_PBMC_5k_classification_1/classification_ctcf_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_1.save/classification_ctcf_motif.sh Copied from scripts/10xgenomics_PBMC_5k_classification_1/classification_ctcf_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_1.save/classification_ebf1_motif.R Copied from scripts/10xgenomics_PBMC_5k_classification_1/classification_ebf1_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_1.save/classification_ebf1_motif.sh Copied from scripts/10xgenomics_PBMC_5k_classification_1/classification_ebf1_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_1.save/classification_myc_motif.R Copied from scripts/10xgenomics_PBMC_5k_classification_1/classification_myc_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_1.save/classification_myc_motif.sh Copied from scripts/10xgenomics_PBMC_5k_classification_1/classification_myc_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_1.save/classification_sp1_motif.R Copied from scripts/10xgenomics_PBMC_5k_classification_1/classification_sp1_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_1.save/classification_sp1_motif.sh Copied from scripts/10xgenomics_PBMC_5k_classification_1/classification_sp1_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_1/classification_ctcf_motif.R Copied to scripts/10xgenomics_PBMC_5k_classification_1.save/classification_ctcf_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_1/classification_ctcf_motif.sh Copied to scripts/10xgenomics_PBMC_5k_classification_1.save/classification_ctcf_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_1/classification_ebf1_motif.R Copied to scripts/10xgenomics_PBMC_5k_classification_1.save/classification_ebf1_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_1/classification_ebf1_motif.sh Copied to scripts/10xgenomics_PBMC_5k_classification_1.save/classification_ebf1_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_1/classification_myc_motif.R Copied to scripts/10xgenomics_PBMC_5k_classification_1.save/classification_myc_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_1/classification_myc_motif.sh Copied to scripts/10xgenomics_PBMC_5k_classification_1.save/classification_myc_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_1/classification_sp1_motif.R Copied to scripts/10xgenomics_PBMC_5k_classification_1.save/classification_sp1_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_1/classification_sp1_motif.sh Copied to scripts/10xgenomics_PBMC_5k_classification_1.save/classification_sp1_motif.sh
A	(dir)	scripts/10xgenomics_PBMC_5k_classification_2.save/
P		scripts/10xgenomics_PBMC_5k_classification_2.save/classification_ctcf_motif.R Copied from scripts/10xgenomics_PBMC_5k_classification_2/classification_ctcf_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_2.save/classification_ctcf_motif.sh Copied from scripts/10xgenomics_PBMC_5k_classification_2/classification_ctcf_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_2.save/classification_ebf1_motif.R Copied from scripts/10xgenomics_PBMC_5k_classification_2/classification_ebf1_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_2.save/classification_ebf1_motif.sh Copied from scripts/10xgenomics_PBMC_5k_classification_2/classification_ebf1_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_2.save/classification_myc_motif.R Copied from scripts/10xgenomics_PBMC_5k_classification_2/classification_myc_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_2.save/classification_myc_motif.sh Copied from scripts/10xgenomics_PBMC_5k_classification_2/classification_myc_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_2.save/classification_sp1_motif.R Copied from scripts/10xgenomics_PBMC_5k_classification_2/classification_sp1_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_2.save/classification_sp1_motif.sh Copied from scripts/10xgenomics_PBMC_5k_classification_2/classification_sp1_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_2/classification_ctcf_motif.R Copied to scripts/10xgenomics_PBMC_5k_classification_2.save/classification_ctcf_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_2/classification_ctcf_motif.sh Copied to scripts/10xgenomics_PBMC_5k_classification_2.save/classification_ctcf_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_2/classification_ebf1_motif.R Copied to scripts/10xgenomics_PBMC_5k_classification_2.save/classification_ebf1_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_2/classification_ebf1_motif.sh Copied to scripts/10xgenomics_PBMC_5k_classification_2.save/classification_ebf1_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_2/classification_myc_motif.R Copied to scripts/10xgenomics_PBMC_5k_classification_2.save/classification_myc_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_2/classification_myc_motif.sh Copied to scripts/10xgenomics_PBMC_5k_classification_2.save/classification_myc_motif.sh
P		scripts/10xgenomics_PBMC_5k_classification_2/classification_sp1_motif.R Copied to scripts/10xgenomics_PBMC_5k_classification_2.save/classification_sp1_motif.R
P		scripts/10xgenomics_PBMC_5k_classification_2/classification_sp1_motif.sh Copied to scripts/10xgenomics_PBMC_5k_classification_2.save/classification_sp1_motif.sh
M		scripts/functions.R
P		src/Applications/ChIPPartitioningApplicationNew.cpp Copied from src/Applications/ChIPPartitioningApplication.cpp
P		src/Applications/ChIPPartitioningApplicationNew.hpp Copied from src/Applications/ChIPPartitioningApplication.hpp
A		src/Applications/ProbToModelApplication.cpp
A		src/Applications/ProbToModelApplication.hpp
M		src/CMakeLists.txt
M		src/Clustering/EMEngine.cpp
D		src/Clustering/EMEngine.cpp.new
A	(dir)	src/ClusteringNew/
A		src/ClusteringNew/DataLayer.cpp
A		src/ClusteringNew/DataLayer.cpp.save
A		src/ClusteringNew/DataLayer.hpp
A		src/ClusteringNew/DataLayer.hpp.save
A		src/ClusteringNew/EMEngineNew.cpp
A		src/ClusteringNew/EMEngineNew.hpp
A		src/ClusteringNew/ModelComputer.cpp
A		src/ClusteringNew/ModelComputer.hpp
A		src/ClusteringNew/ReadLayer.cpp
A		src/ClusteringNew/ReadLayer.hpp
A		src/ClusteringNew/ReadModelComputer.cpp
A		src/ClusteringNew/ReadModelComputer.hpp
A		src/ClusteringNew/SequenceLayer.cpp
A		src/ClusteringNew/SequenceLayer.hpp
A		src/ClusteringNew/SequenceModelComputer.cpp
A		src/ClusteringNew/SequenceModelComputer.hpp
A		src/Utility/dna_utility.cpp
A		src/Utility/dna_utility.hpp
A		src/Utility/matrices.cpp
A		src/Utility/matrices.hpp
M		src/main_cormat.cpp
M		src/main_em.cpp
A		src/main_em2.cpp