Key Paths

Cell Ranger Outputs:

K562: /oak/stanford/groups/engreitz/Users/ejagoda/230327_Encode_K562_Tap_seq_full_seq/230327_Encode_Tap_all_moi5_w_fresh_aggregate_no_norm
WTC11: /oak/stanford/groups/engreitz/Users/ejagoda/231114-WTC11-ENCODE-DC-TAP-MOI5-Frozen-16-Lanes/count/

v32 (v32lift37) when needed for hg19-based analyses — original target/guide code is hg19.

K562: /oak/stanford/groups/engreitz/Users/jgalante/ENCODE_Sceptre_Analysis/results/process_validation_datasets/K562_DC_TAP_Seq
WTC11: /oak/stanford/groups/engreitz/Users/jgalante/ENCODE_Sceptre_Analysis/results/process_validation_datasets/WTC11_DC_TAP_Seq

Name		Name	Last commit message	Last commit date
Latest commit History 19 Commits
Main_Figures		Main_Figures
SFigs		SFigs
STables		STables
inputs_for_Table_SX_RandomScreenDesign_1		inputs_for_Table_SX_RandomScreenDesign_1
inputs_for_Table_SX_RandomScreenDesign_2		inputs_for_Table_SX_RandomScreenDesign_2
inputs_for_fig1		inputs_for_fig1
README.md		README.md
make_Table_SX_RandomScreenDesign_1.R		make_Table_SX_RandomScreenDesign_1.R
make_Table_SX_RandomScreenDesign_2.R		make_Table_SX_RandomScreenDesign_2.R
make_figure_1c_d_sfigs_v2.R		make_figure_1c_d_sfigs_v2.R
screen_design_exploration_EJ_edit_random_1.27.22.Rmd		screen_design_exploration_EJ_edit_random_1.27.22.Rmd
screen_design_exploration_EJ_edit_random_wct11_2.1.21.Rmd		screen_design_exploration_EJ_edit_random_wct11_2.1.21.Rmd