Diffusion scATAC-seq 7b3b7bc40180

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Authored by rgroux on Aug 23 2019, 10:22.

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rgroux

Aug 23 2019, 10:22

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rgroux

Aug 23 2019, 10:28

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R8820:1f2a156d69fc: Move constructors and assignment operators added to Matrix, DataLayer, EM and…

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rgroux committed R8820:7b3b7bc40180: save (authored by rgroux).Aug 23 2019, 10:22

Changes (106)

		Path
V		scripts/{10xgenomics_PBMC_5k → 10xgenomics_PBMC_5k_motifs}/analysis_ctcf_motif.R
V		scripts/{10xgenomics_PBMC_5k → 10xgenomics_PBMC_5k_motifs}/analysis_ctcf_motif.sh
V		scripts/{10xgenomics_PBMC_5k → 10xgenomics_PBMC_5k_motifs}/analysis_ebf1_motif.R
V		scripts/{10xgenomics_PBMC_5k → 10xgenomics_PBMC_5k_motifs}/analysis_ebf1_motif.sh
V		scripts/{10xgenomics_PBMC_5k → 10xgenomics_PBMC_5k_motifs}/analysis_myc_motif.R
V		scripts/{10xgenomics_PBMC_5k → 10xgenomics_PBMC_5k_motifs}/analysis_myc_motif.sh
D		scripts/10xgenomics_PBMC_5k/analysis_peaks.sh
V		scripts/{10xgenomics_PBMC_5k → 10xgenomics_PBMC_5k_motifs}/analysis_sp1_motif.R
V		scripts/{10xgenomics_PBMC_5k → 10xgenomics_PBMC_5k_motifs}/analysis_sp1_motif.sh
D		scripts/10xgenomics_PBMC_5k_classification_1
V		scripts/{10xgenomics_PBMC_5k_classification_1 → 10xgenomics_PBMC_5k_motifs_classification_1}/classification_ctcf_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_1 → 10xgenomics_PBMC_5k_motifs_classification_1}/classification_ctcf_motif.sh
V		scripts/{10xgenomics_PBMC_5k_classification_1 → 10xgenomics_PBMC_5k_motifs_classification_1}/classification_ebf1_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_1 → 10xgenomics_PBMC_5k_motifs_classification_1}/classification_ebf1_motif.sh
V		scripts/{10xgenomics_PBMC_5k_classification_1 → 10xgenomics_PBMC_5k_motifs_classification_1}/classification_myc_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_1 → 10xgenomics_PBMC_5k_motifs_classification_1}/classification_myc_motif.sh
V		scripts/{10xgenomics_PBMC_5k_classification_1 → 10xgenomics_PBMC_5k_motifs_classification_1}/classification_sp1_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_1 → 10xgenomics_PBMC_5k_motifs_classification_1}/classification_sp1_motif.sh
D		scripts/10xgenomics_PBMC_5k_classification_2
V		scripts/{10xgenomics_PBMC_5k_classification_2 → 10xgenomics_PBMC_5k_motifs_classification_2}/classification_ctcf_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_2 → 10xgenomics_PBMC_5k_motifs_classification_2}/classification_ctcf_motif.sh
V		scripts/{10xgenomics_PBMC_5k_classification_2 → 10xgenomics_PBMC_5k_motifs_classification_2}/classification_ebf1_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_2 → 10xgenomics_PBMC_5k_motifs_classification_2}/classification_ebf1_motif.sh
V		scripts/{10xgenomics_PBMC_5k_classification_2 → 10xgenomics_PBMC_5k_motifs_classification_2}/classification_myc_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_2 → 10xgenomics_PBMC_5k_motifs_classification_2}/classification_myc_motif.sh
V		scripts/{10xgenomics_PBMC_5k_classification_2 → 10xgenomics_PBMC_5k_motifs_classification_2}/classification_sp1_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_2 → 10xgenomics_PBMC_5k_motifs_classification_2}/classification_sp1_motif.sh
D		scripts/10xgenomics_PBMC_5k_classification_3
V		scripts/{10xgenomics_PBMC_5k_classification_3 → 10xgenomics_PBMC_5k_motifs_classification_3}/classification_ctcf_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_3 → 10xgenomics_PBMC_5k_motifs_classification_3}/classification_ctcf_motif.sh
V		scripts/{10xgenomics_PBMC_5k_classification_3 → 10xgenomics_PBMC_5k_motifs_classification_3}/classification_sp1_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_3 → 10xgenomics_PBMC_5k_motifs_classification_3}/classification_sp1_motif.sh
D		scripts/10xgenomics_PBMC_5k_classification_4
V		scripts/{10xgenomics_PBMC_5k_classification_4 → 10xgenomics_PBMC_5k_motifs_classification_4}/classification_ctcf_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_4 → 10xgenomics_PBMC_5k_motifs_classification_4}/classification_ctcf_motif.sh
V		scripts/{10xgenomics_PBMC_5k_classification_4 → 10xgenomics_PBMC_5k_motifs_classification_4}/classification_sp1_motif.R
V		scripts/{10xgenomics_PBMC_5k_classification_4 → 10xgenomics_PBMC_5k_motifs_classification_4}/classification_sp1_motif.sh
A	(dir)	scripts/10xgenomics_PBMC_5k_motifs/
V		scripts/{10xgenomics_PBMC_5k_motifs ← 10xgenomics_PBMC_5k}/analysis_ctcf_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs ← 10xgenomics_PBMC_5k}/analysis_ctcf_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs ← 10xgenomics_PBMC_5k}/analysis_ebf1_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs ← 10xgenomics_PBMC_5k}/analysis_ebf1_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs ← 10xgenomics_PBMC_5k}/analysis_myc_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs ← 10xgenomics_PBMC_5k}/analysis_myc_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs ← 10xgenomics_PBMC_5k}/analysis_sp1_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs ← 10xgenomics_PBMC_5k}/analysis_sp1_motif.sh
A	(dir)	scripts/10xgenomics_PBMC_5k_motifs_classification_1/
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_1 ← 10xgenomics_PBMC_5k_classification_1}/classification_ctcf_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_1 ← 10xgenomics_PBMC_5k_classification_1}/classification_ctcf_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_1 ← 10xgenomics_PBMC_5k_classification_1}/classification_ebf1_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_1 ← 10xgenomics_PBMC_5k_classification_1}/classification_ebf1_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_1 ← 10xgenomics_PBMC_5k_classification_1}/classification_myc_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_1 ← 10xgenomics_PBMC_5k_classification_1}/classification_myc_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_1 ← 10xgenomics_PBMC_5k_classification_1}/classification_sp1_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_1 ← 10xgenomics_PBMC_5k_classification_1}/classification_sp1_motif.sh
A		scripts/10xgenomics_PBMC_5k_motifs_classification_1/run_all.sh
A	(dir)	scripts/10xgenomics_PBMC_5k_motifs_classification_2/
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_2 ← 10xgenomics_PBMC_5k_classification_2}/classification_ctcf_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_2 ← 10xgenomics_PBMC_5k_classification_2}/classification_ctcf_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_2 ← 10xgenomics_PBMC_5k_classification_2}/classification_ebf1_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_2 ← 10xgenomics_PBMC_5k_classification_2}/classification_ebf1_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_2 ← 10xgenomics_PBMC_5k_classification_2}/classification_myc_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_2 ← 10xgenomics_PBMC_5k_classification_2}/classification_myc_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_2 ← 10xgenomics_PBMC_5k_classification_2}/classification_sp1_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_2 ← 10xgenomics_PBMC_5k_classification_2}/classification_sp1_motif.sh
A		scripts/10xgenomics_PBMC_5k_motifs_classification_2/run_all.sh
A	(dir)	scripts/10xgenomics_PBMC_5k_motifs_classification_3/
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_3 ← 10xgenomics_PBMC_5k_classification_3}/classification_ctcf_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_3 ← 10xgenomics_PBMC_5k_classification_3}/classification_ctcf_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_3 ← 10xgenomics_PBMC_5k_classification_3}/classification_sp1_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_3 ← 10xgenomics_PBMC_5k_classification_3}/classification_sp1_motif.sh
A		scripts/10xgenomics_PBMC_5k_motifs_classification_3/run_all.sh
A	(dir)	scripts/10xgenomics_PBMC_5k_motifs_classification_4/
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_4 ← 10xgenomics_PBMC_5k_classification_4}/classification_ctcf_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_4 ← 10xgenomics_PBMC_5k_classification_4}/classification_ctcf_motif.sh
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_4 ← 10xgenomics_PBMC_5k_classification_4}/classification_sp1_motif.R
V		scripts/{10xgenomics_PBMC_5k_motifs_classification_4 ← 10xgenomics_PBMC_5k_classification_4}/classification_sp1_motif.sh
A		scripts/10xgenomics_PBMC_5k_motifs_classification_4/run_all.sh
M		scripts/10xgenomics_PBMC_5k_peaks_classification_1/classification_peaks_sampled.sh
P		scripts/10xgenomics_PBMC_5k_peaks_classification_6/analysis_test_sampled.R Copied from scripts/10xgenomics_PBMC_5k_peaks_classification_7/analysis_test.R
P		scripts/10xgenomics_PBMC_5k_peaks_classification_7/analysis_test.R Copied to scripts/10xgenomics_PBMC_5k_peaks_classification_6/analysis_test_sampled.R
M		scripts/10xgenomics_PBMC_5k_peaks_classification_7/classification_peaks.sh
M		src/Applications/EMJointApplication.cpp
M		src/Applications/EMJointApplication.hpp
M		src/Applications/EMReadApplication.cpp
M		src/Applications/EMReadApplication.hpp
M		src/Applications/EMSequenceApplication.cpp
M		src/Applications/EMSequenceApplication.hpp
M		src/Applications/ProbToModelApplication.cpp
M		src/Applications/ReadModelExtenderApplication.cpp
M		src/Applications/SequenceModelExtenderApplication.cpp
M		src/CMakeLists.txt
M		src/Clustering/EMBase.cpp
M		src/Clustering/EMJoint.cpp
M		src/Clustering/EMRead.cpp
M		src/Clustering/EMSequence.cpp
M		src/Clustering/ReadLayer.cpp
M		src/Matrix/Matrix.hpp
M		src/Matrix/Matrix2D.hpp
M		src/Matrix/Matrix3D.hpp
M		src/Matrix/Matrix4D.hpp
M		src/main_cormat.cpp
D		src/main_em.cpp
D		src/main_em2.cpp
D		src/main_seqan.cpp
A		src/main_test.cpp