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import numpy as np
import matplotlib.pyplot as plt
from scipy.stats import norm
class Cell:
def __init__(self, cell_type, health=1.0, mutation_rate=0.001, efficacy=0.5):
self.cell_type = …
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Thank you for your outstanding tool! It is very useful in inferring CNV and is very accurate for my data.
Now I try to infer epithelial ovarian cancer cells (which are very closely associated with CN…
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Hi cellxgene-census team,
I am using cellxgene to train a foundation model, and I used scGPT and cellxgene census tool to download scRNA data.
When I set the release date as "2023-05-15", I have 5M…
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We were wondering if disease associate cell types should have their own CL term. Ones that we've come across:
- cancer associated fibroblast (CAF)
- tumor associated macrophage (TAM)
Many immun…
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Dear developers:
First of all, thank you for developing this great algorithms, it really helped my research.
I try to find the specific immune cell fraction in a bulk dataset containing multiple c…
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Hello,
Thank you for the amazing tool. It works really good. I have 2 particular questions.
I have 2 big datasets, primary lung adenocarcinoma tumor and brain metastasis of lung adenocarcinoma.
Th…
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cancer cells classic-like should be cancer classical cells according to the PDAC consensus classification (basal-like and classical).
"bulk references" could be confusing. Suggestion instead: cell-ty…
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Hi, I have several BGI `stereo-seq` ST data of mouse liver cancer data. I'd like to known whether `CancerFinder` can be applied to it to find cancer cells and how to do it? And if it can be run, what …
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import random
class BloodSample:
def __init__(self, blood_type):
self.blood_type = blood_type
class Cell:
def __init__(self, cell_type):
self.cell_type = cell_type
se…
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pysam.pileup `max_depth` argument is by default 8000, however for RNA-seq there are edge cases as below, where a germline intronic SNP in a strongly expressed gene will appear as a false-positive soma…