Workflow

Differential expression group B: DF_Group_B_Conserved_all.txt. Differential expression group C: DF_Group_C_Conserved_all.txt. Differential expression group D: DF_Group_D.txt.

Click the nodes to obtain details about each step.

DEG

Group_B

Group_C

Group_D

Statistics

If the workflow has been executed in cluster/cloud, runtimes include the waiting time in the queue.

Configuration

Configuration files
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# This file contains everything to configure the workflow on a global scale.
# The sample based data must be complemented by a samples.tsv file that contains
# one row per sample. It can be parsed easily via pandas.
samples: "config/samples.tsv"
params:
  Preprocess:
    tool: "seurat"
    project: "IPSCs_pink1"
    dataset: "IPSCs_pink1"
    organism: "human"
    imputation: FALSE
    remove_mt: FALSE
    remove_ribsomal: FALSE
    n_cores: 1
    elbow: TRUE
    SCT: TRUE
    criteria_pass: 3
    min.cells: 10
    min.features: 200
    data_10x: FALSE

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