Code

CLK1 exon 4 variation#7

Code

Merged

naqvia merged 48 commits intomainrokitalab/clk1-splicing:mainfrom naqvia/compute-variations-ex4rokitalab/clk1-splicing:naqvia/compute-variations-ex4Copy head branch name to clipboardFeb 14, 2025

+36,579-46

Commits

Commits on Nov 19, 2024

• compute variation for high CLK1 expressing samples/histologies

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Commits on Nov 21, 2024

• variation and range plots

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Commits on Nov 22, 2024

• transcript tpms for ctrls vs hgg

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• variation with ctrls added

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Commits on Dec 3, 2024

• psi for other kinases

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Commits on Dec 4, 2024

• kinase variations

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• added ylim

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• labeled ped regions

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• color-blind friendly colors

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• added cortex

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• with plot_groups and color (tpm plot)

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Commits on Dec 6, 2024

• added plot

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• plot

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• plot size

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• sorted by mean

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• rem. polyA filter (can decide later)

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Commits on Dec 9, 2024

• removed the tpm filter in this version bc we mixed polyA and stranded

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Commits on Dec 10, 2024

• age-specific plot

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• add stats

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• adjusted labels and stats

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• with other age-bins

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Commits on Dec 12, 2024

• plot and added astrocytes and age bins

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Commits on Dec 17, 2024

• modified plots

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• diff age_bins for plots

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Commits on Dec 19, 2024

• mofied age bins

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Commits on Dec 23, 2024

• also make a plot of total TPM for Ex4

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• stylistic changes

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• plot aethstics

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  a964a0c

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• fixed y lim

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Commits on Dec 27, 2024

• spinal comparisons

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Commits on Dec 30, 2024

• re-arrange astrocyte ctrl group

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Commits on Jan 8, 2025

• updated plot texts and ordering addressing reviewer comments

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Commits on Jan 10, 2025

• cleaned code and paths

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Commits on Jan 13, 2025

• fixed paths

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• cleaned code and remove unn scripts

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• added new scripts to run script

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Commits on Jan 14, 2025

• fixed rmats file path and deleted extraneous code

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• fixed paths for 11 and 12

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• added headers and to run module

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• plots

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Commits on Jan 21, 2025

• fixed evo-devo ordering

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Commits on Jan 27, 2025

• update normal labels, typo

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• Merge branch 'main' into naqvia/compute-variations-ex4

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• Pons CNH inpu file

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• added CNH Pons

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Commits on Feb 3, 2025

• increased text size and width for plot

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Commits on Feb 11, 2025

• added path to file

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• loaded coin library for tests

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