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sortseq_belliveau:Belliveau等人的代码和分析。 2017年
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剖析细菌中转录调控的分子机制的系统方法。 doi: jupyter_notebook /文件夹包含各种与附录中的工作相关的Jupyter笔记本。 此外,以下两个Jupyter笔记本可用于可视化Sort-Seq数据。 Sort-Seq_promoter_data_visualization.ipynb可用于查看每个启动子的表达位移,信息足迹和突变率的图。 Sort-Seq_energy_matrix_visualization.ipynb可用于可视化推断的能量矩阵。 所有处理后的数据均以整齐的.csv文件格式提供,使用Python中的熊猫最方便地查看它们,但也可以使用电子表格编辑器(例如Microsoft Excel)加载该文件。 用于分析和绘图的所有代码都是用Python编写的。 要运行文件,可能需要以下依赖项。 请注意,能量矩阵处理和一些绘制.py代码的图形需要PyMC
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sortseq_belliveau:Belliveau等人的代码和分析。 2017年 (4594个子文件)
2011_lacZ_MG1655_M9glucose_ns_mut1_4bins.cfg 1KB
20150513_marR_MG1655deltamarRAB_LB_na_mut1_4bins.cfg 1KB
20150513_marR_MG1655deltamarR_LB_na_mut1_4bins.cfg 1KB
20150513_marR_MG1655_LB_na_mut1_4bins.cfg 1KB
20160824_purT_MG1655deltapurR_M9glucose_adenine_mut1_4bins.cfg 1KB
20150513_relB_MG1655deltarelBE_M9glucose_ns_mut1_4bins.cfg 1KB
20150519_relB_MG1655_M9glucose_22percentile_mut1_4bins.cfg 1KB
20150519_relB_MG1655_M9glucose_15percentile_mut1_4bins.cfg 1KB
20170717_yebG_MG1655_M9glucose_mitoC_mut2_4bins.cfg 1KB
20160710_purT_MG1655_M9glucose_adenine_mut1_4bins.cfg 1KB
20150519_relB_MG1655_M9glucose_8bins_mut1_8bins.cfg 1KB
20160710_xylE_MG1655_M9xylose_na_mut2_4bins.cfg 1KB
20150312_relB_MG1655_M9glucose_na_mut1_4bins.cfg 1KB
20170717_yebG_MG1655_M9glucose_na_mut2_4bins.cfg 1KB
20150513_marR_MG1655deltamarR_LB_na_mut2_4bins.cfg 1KB
20160824_dgoR_MG1655deltadgoR_M9glucose_na_mut1_4bins.cfg 1KB
20160824_dgoR_MG1655deltadgoR_M9glucose_na_mut3_4bins.cfg 1KB
20160921_dgoR_JK10_EZrichgalactonate_500cAMP_mut3_4bins.cfg 1KB
20150820_marR_MG1655_LB_ns_mut2_4bins.cfg 1KB
20160710_dgoR_MG1655_M9galactonate_na_mut3_4bins.cfg 1KB
20160710_purT_MG1655_M9glucose_na_mut1_4bins.cfg 1KB
20160921_dgoR_JK10_EZrichglucose_0cAMP_mut3_4bins.cfg 1KB
20170717_yebG_MG1655_M9glucose_mitoC_mut1_4bins.cfg 1KB
20160710_dgoR_MG1655_M9glucose_na_mut1_4bins.cfg 1KB
20160710_dgoR_MG1655_M9glucose_na_mut3_4bins.cfg 1KB
20170717_yebG_MG1655_M9glucose_na_mut1_4bins.cfg 1KB
20160710_xylE_MG1655_M9xylose_na_mut1_4bins.cfg 1KB
20160710_xylE_MG1655_M9xylose_na_mut3_4bins.cfg 1KB
20160710_purT_MG1655_M9glucose_adenine_mut1_4bins.cfg 790B
20160710_dgoR_MG1655_M9glucose_na_mut1_4bins.cfg 752B
20160710_dgoR_MG1655_M9galactonate_na_mut3_4bins.cfg 729B
20160710_dgoR_MG1655_M9glucose_na_mut3_4bins.cfg 717B
20160710_xylE_MG1655_M9xylose_ns_mut2_4bins.cfg 699B
20160710_xylE_MG1655_M9xylose_ns_mut3_4bins.cfg 693B
20160710_purT_MG1655_M9glucose_na_mut1_4bins.cfg 662B
20160710_dgoR_MG1655_M9galactonate_na_mut2_4bins.cfg 643B
20160824_dgoR_MG1655deltadgoR_M9glucose_na_mut2_4bins.cfg 622B
20160710_dgoR_MG1655_M9galactonate_na_mut1_4bins.cfg 612B
20160710_purT_MG1655_M9glucose_adenine_mut2_4bins.cfg 610B
20160710_dgoR_MG1655_M9glucose_na_mut2_4bins.cfg 599B
20160710_purT_MG1655_M9glucose_adenine_mut3_4bins.cfg 599B
20160710_purT_MG1655_M9glucose_na_mut2_4bins.cfg 598B
20160710_purT_MG1655_M9glucose_na_mut3_4bins.cfg 596B
20150513_marR_MG1655deltamarRAB_LB_na_mut2_4bins.cfg 583B
20160710_dgoR_MG1655_M9galactonate_na_mut1_4bins.cfg 490B
20160710_dgoR_MG1655_M9galactonate_na_mut2_4bins.cfg 472B
20160710_purT_MG1655_M9glucose_adenine_mut2_4bins.cfg 468B
20160710_purT_MG1655_M9glucose_na_mut3_4bins.cfg 468B
20160710_dgoR_MG1655_M9glucose_na_mut2_4bins.cfg 464B
20160710_purT_MG1655_M9glucose_adenine_mut3_4bins.cfg 458B
20160710_purT_MG1655_M9glucose_na_mut2_4bins.cfg 458B
20160710_xylE_MG1655_M9xylose_ns_mut1_4bins.cfg 456B
pymc_pdgoR_sim_RNAP_relB.cfg 383B
pymc_pdgoR_sim_RNAP_relB.cfg 382B
pymc_pdgoR_sim_RNAP_relB.cfg 382B
20170822_pdgor_3RNAP_relB_shifted_pymc_scalefactor1.csv 45.01MB
20170822_pdgor_2RNAP_relB_shifted_pymc_scalefactor1.csv 45.01MB
20170822_pdgor_1RNAP_relB_shifted_pymc_scalefactor1.csv 45.01MB
20160710_dgoR_MG1655_M9glucose_na_mut3_4bins_condMI.csv 2.32MB
20160710_dgoR_MG1655_M9galactonate_na_mut1_4bins_condMI.csv 2.32MB
20160710_dgoR_MG1655_M9galactonate_na_mut2_4bins_condMI.csv 2.32MB
20160710_dgoR_MG1655_M9glucose_na_mut2_4bins_condMI.csv 2.32MB
20160824_dgoR_MG1655deltadgoR_M9glucose_na_mut2_4bins_condMI.csv 2.32MB
20160824_dgoR_MG1655deltadgoR_M9glucose_na_mut3_4bins_condMI.csv 2.32MB
20160824_dgoR_MG1655deltadgoR_M9glucose_na_mut1_4bins_condMI.csv 2.32MB
20160710_dgoR_MG1655_M9galactonate_na_mut3_4bins_condMI.csv 2.32MB
20160921_dgoR_JK10_EZrichglucose_0cAMP_mut3_4bins_condMI.csv 2.32MB
20160921_dgoR_JK10_EZrichgalactonate_500cAMP_mut3_4bins_condMI.csv 2.32MB
20160710_xylE_MG1655_M9xylose_ns_mut1_4bins_condMI.csv 2.15MB
20160710_purT_MG1655_M9glucose_na_mut2_4bins_condMI.csv 2.15MB
20160824_purT_MG1655deltapurR_M9glucose_adenine_mut1_4bins_condMI.csv 2.15MB
20160710_purT_MG1655_M9glucose_adenine_mut1_4bins_condMI.csv 2.15MB
20160710_purT_MG1655_M9glucose_adenine_mut2_4bins_condMI.csv 2.15MB
20160710_purT_MG1655_M9glucose_na_mut3_4bins_condMI.csv 2.15MB
20160710_purT_MG1655_M9glucose_na_mut1_4bins_condMI.csv 2.15MB
20160710_xylE_MG1655_M9xylose_ns_mut3_4bins_condMI.csv 2.15MB
20160710_xylE_MG1655_M9xylose_ns_mut2_4bins_condMI.csv 2.15MB
20160710_purT_MG1655_M9glucose_adenine_mut3_4bins_condMI.csv 2.15MB
20170227_flow_hist.csv 1004KB
Nature_Bio_2015_Schmidt_supS7_2.csv 851KB
RegulonDB_20170630_BindingSiteSet.csv 809KB
20170422_xylE_longDNA_1_mass_spec_summary.csv 677KB
20170503_xylE_longDNA_2_mass_spec_summary.csv 675KB
20170503_xylE_longDNA_3_mass_spec_summary.csv 674KB
20170206_flow_hist.csv 572KB
20170229_flow_hist.csv 500KB
20150519_relB_MG1655_M9glucose_22percentile_mut1_4bins_condMI.csv 479KB
20150513_marR_MG1655deltamarRAB_LB_ns_mut1_4bins_condMI.csv 479KB
20150513_marR_MG1655deltamarRAB_LB_ns_mut2_4bins_condMI.csv 479KB
20150519_relB_MG1655_M9glucose_15percentile_mut1_4bins_condMI.csv 479KB
20150519_relB_MG1655_M9glucose_8bins_mut1_8bins_condMI.csv 479KB
20150513_marR_MG1655deltamarR_LB_ns_mut1_4bins_condMI.csv 479KB
20150513_marR_MG1655_LB_ns_mut1_4bins_condMI.csv 479KB
20150513_marR_MG1655deltamarR_LB_ns_mut2_4bins_condMI.csv 479KB
20150820_marR_MG1655_LB_ns_mut2_4bins_condMI.csv 479KB
20150312_relB_MG1655_M9glucose_ns_mut1_4bins_condMI.csv 479KB
20150513_relB_MG1655deltarelBE_M9glucose_ns_mut1_4bins_condMI.csv 479KB
20170228_flow_hist.csv 470KB
20160224_flow_hist.csv 467KB
20160604_flow_hist.csv 463KB
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