Scanpy Load count matrices
This task permit to load count matrices belonging to multiple samples and stored in different format
-This task permit to load count matrices belonging to multiple samples. In fact, these files could be generated using different tools cellranger or STAR solo (there is already a task for STAR solo). -Using this task permits also to eliminate cells predected to be doublet. It also permits to visualize the distribution of mitochondrial,ribosomal,hemoglobin genes and the number of genes with at least 1 count in a cell. -It allows also to generate a table containing the min and max values in each of these parameters. -Finally the concatenated data stored in .h5ad format will be used to perform the preprocessing and data filtring. -In term of input file format : .h5 ; .csv ; matrix.mtx.gz, barcodes.tsv.gz, features.tsv.gz or matrix.mtx, barcodes.tsv , features.tsv. -IMPORTANT : Please verify that your files are named as follow !!! * For .h5 and .csv file : samplename_what_you_want_to_put.h5 or samplename_what_you_want_to_put.csv * For matrix.mtx.gz, barcodes.tsv.gz, features.tsv.gz or matrix.mtx ,barcodes.tsv ,features.tsv : samplename_matrix.mtx.gz , samplename_features.tsv.gz , samplename_barcodes.tsv.gz or samplename_matrix.mtx , samplename_features.tsv , samplename_barcodes.tsv * samplename could be : patient1 or PATIENT1 or P2 or pat2 or PAT2 or control1 or CONTROL5 or ctr1 ect ....