GitHub - jdemeul/ASE_analysis: Tools for analysis of Allele Specific Expression in T-ALL and AML

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Tools for analysis of Allele Specific Expression in T-ALL and AML

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Name		Name	Last commit message	Last commit date
Latest commit History 25 Commits
.gitattributes		.gitattributes
.gitignore		.gitignore
1000Genomes_getAllelecounts.R		1000Genomes_getAllelecounts.R
1000Genomes_preprocessing.R		1000Genomes_preprocessing.R
20180209_sbatch_snv_indel_pipeline.sh		20180209_sbatch_snv_indel_pipeline.sh
20180521_sbatch_WXS_pipeline.sh		20180521_sbatch_WXS_pipeline.sh
20180627_aml_htseq_count.sh		20180627_aml_htseq_count.sh
20180817_sbatch_WXS_pipeline.sh		20180817_sbatch_WXS_pipeline.sh
AML_various.R		AML_various.R
ASE_analysis.Rproj		ASE_analysis.Rproj
SureSelect_mapping_pipeline.sh		SureSelect_mapping_pipeline.sh
WXS_mapping_pipeline.sh		WXS_mapping_pipeline.sh
add_expression_data.R		add_expression_data.R
add_expression_data_VST.R		add_expression_data_VST.R
add_expression_data_VST_aml.R		add_expression_data_VST_aml.R
add_expression_data_VST_aml_TCGA.R		add_expression_data_VST_aml_TCGA.R
aml_rnaseq_cell_lines_submit.sh		aml_rnaseq_cell_lines_submit.sh
aml_rnaseq_htseq.sh		aml_rnaseq_htseq.sh
aml_rnaseq_htseq_submit.sh		aml_rnaseq_htseq_submit.sh
ase.R		ase.R
ase_nomatch.R		ase_nomatch.R
ase_nomatch_aml.R		ase_nomatch_aml.R
ase_nomatch_cell_lines.R		ase_nomatch_cell_lines.R
ase_nomatch_hg38tcga.R		ase_nomatch_hg38tcga.R
ase_nomatch_hg38tcga_functions.R		ase_nomatch_hg38tcga_functions.R
camp_cell_lines_WXS.sh		camp_cell_lines_WXS.sh
camp_snv_indel_calling_pipeline_v2.sh		camp_snv_indel_calling_pipeline_v2.sh
checkFAT1variants.R		checkFAT1variants.R
checkReferenceBias.R		checkReferenceBias.R
combine_allelic_imbalance_results.R		combine_allelic_imbalance_results.R
combine_allelic_imbalance_results_AML.R		combine_allelic_imbalance_results_AML.R
combine_allelic_imbalance_results_AML_TCGA.R		combine_allelic_imbalance_results_AML_TCGA.R
eml_aml_cell_lines_RNASeq.sh		eml_aml_cell_lines_RNASeq.sh
eml_aml_patients_RNASeq.sh		eml_aml_patients_RNASeq.sh
eml_cell_lines_RNASeq.sh		eml_cell_lines_RNASeq.sh
get_TCGA_sample_annotation.R		get_TCGA_sample_annotation.R
getrecurrencesummary.R		getrecurrencesummary.R
getrecurrencesummary_AML.R		getrecurrencesummary_AML.R
getrecurrencesummary_AML_TCGA.R		getrecurrencesummary_AML_TCGA.R
getrecurrencesummary_plots.R		getrecurrencesummary_plots.R
getrecurrencesummary_plots_AML.R		getrecurrencesummary_plots_AML.R
getrecurrencesummary_plots_AML_TCGA.R		getrecurrencesummary_plots_AML_TCGA.R
utils.R		utils.R