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Created with Raphaël 2.2.017May1621Feb15Oct12Aug28Apr1615Mar27Jan1512118718Dec3130Nov201612654327Oct26232221src/commands.sh: add stat parametermastermastersrc/visu/figure_maker.py: add line at bins different between two conditions.gitignore: update files to ignoresrc/bed_handler/select_regulated_near_ctcf_exons.py: add filter_expressed functionsrc/bed_handler/filter_bed.py: change in filter_bed typessrc/bed_handler/config.py: Add expressed_genes variablesrc/visu/__main__.py: add a stat parametersrc/visu/figure_maker.py: Add a stat parameter to perform statistical analysis on the metagene figuresrc/commands.sh: update Figures 1C, figures 5C and 5B to use the new bigwig filessrc/commands.sh: updatesrc/visu/figure_maker.py: remove sd displaysrc/visu/__main__.py: small simplicationsrc/gc_content/gc_content.py: removal of the palette colordoc/source/modules.rst: change of nameREADME.md: updatedoc/source/index.rst: documentation updatedoc/source/Licence.rst: add doc for the licence.gitignore: update gitignoredoc/: add docsrc/__init__.py: add init filesrc/visu/__main__.py: modification in launcher docstringREADME.md: updateREADME.md: updateLICENCE: add licenceREADME.md: add readmesrc/visu/figure_maker.py: small change in load_bedsrc/gc_content/gc_content.py: add an id column in the table returned by build_gc_dataframe, change bar colors in make_gc_barplot functionsrc/commands.sh: add creation of meatagene and gc content figure for readthrough, readthrough_ctcf and no_readthrough exon listsrc/gc_content/gc_content.py: modfication of add_stat_annotation calls in make_gc_barplotsrc/gc_content/gc_stats.py: fix mann_whitney and make_stat function used when more than two lists of exons are usedsrc/gc_content/stat_annot.py: major pep8 modificationssrc/bed_handler/select_regulated_near_ctcf_exons.py: new function get_bed_ctcf_exon to only recover exons close to CTCF peaks in a given bed file containing exonssrc/bed_handler/get_last_exons.py: script to get the last exons of each gene in a bed file given in inputsrc/bed_handler/config.py: add a new variable all_vs_ctcfsrc/commands.sh: modification of metaexon file of exons regulated or in a gene containing exons regulated by DDX5/17 near or Far from CTCFsrc/visu/figure_maker.py: change style of the figure + add parameter ylimsrc/visu/__main__.py: add parameter ylimsrc/gc_content/gc_content.py: change graphic style of the figuresrc/commands.sh: change gc content figure -e parameter to 2000 + coverage figure for 5y only on expressed genessrc/commands.sh: removing genes with readthrough/no readthrough with a basemean <= 5