v1.3.1 - Update to the new Flamingo architecture

Updates:

• update path to the new Flamingo architecture.
• update fastqc (from 0.11.9 to 0.12.1) and install java-jdk, to bug fix java dependency.

v1.3 - Update Annotation

News:

• Add new annotation by Cell-ID
• Add custom references

Updates:

• Bug fix cerebro v1.2.2
• Bug fix example of installation conda environement for user
• Bug fix on the names of fastq files (if the sample name is in the name of an other sample)
• Delete some intermediate files

v1.2 - Add ADT, TCR and BCR for integrated or grouped analysis

News:

• ADT, TCR and BCR analysis are implemented for integrated or grouped analysis

v1.1 - Integration analysis

News:

• Integrated analysis are now implemented
• Grouped analysis (no integrated) are now implemented
• A metadata file can be added to include information into seurat object (and cerebro object)

Updates:

• The RNA/ADT expression correlation table are save in text format and a variant of this calculation (according to the quartile cutoffs used for the comparison graph) has been added.