mabaowei_readingene

Hi hero After commond “ rvel.cd

Hi After commond “ rvel.cd

what is mean of ‘raw_count’ in tcr_clumping? Thanks and Best !

mixed effects model with nested random effects The nested random effects specified after inputting the parameters do not take effect. my_formula2=‘y~a+b'’ **_statsmodels.formula.api.negativebinomial(my_formula2, data=data, groups=data["lei"] )_** statsmodels/base/model.py:130: ValueWarning: unknown kwargs ['groups',...

How to select gene list

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Hi Doc ex： gene_list=['Smarca2', 'Rbms2', 'Myo1b', 'Hba-x', 'Yipf5', 'Skap1', 'Smim1', 'Nfkb1', 'Sulf2', 'Blvrb', 'Hbb-y', 'Coro2b', 'Yipf5', 'Phc2', 'Mllt3'] loss_df, cellDancer_df=cd.velocity(cell_type_u_s,\ gene_list=gene_list,\ permutation_ratio=0.125,\ n_jobs=8) I don't know how to selsect gene_list...

model = Lmer("DV_l ~ IV3 + (IV3|Group)", data=df,family='nbinom') Traceback (most recent call last): File "", line 1, in File "/share/TJPROJ5/public/softwares/conda/miniforge3_20240402/envs/scanpy_20240215/lib/python3.12/site-packages/pymer4/models/Lmer.py", line 84, in __init__ raise ValueError( ValueError: Family must be...

Hi, Thanks for this great package. I’m running into some issues “”“ def get_similarity_network(network_type, adata, threshold, k, data_path, data_name, split, seed, train_gene_set_size, set2conditions, default_pert_graph=True, pert_list=None): if network_type == 'co-express': df_out...