NEWS

---

ClustIRR 1.9.25

• move from CRAN's blaster to Bioconductors rBLAST

ClustIRR 1.9.17

• quantiative comparison community abundance with normalized rank abundance distributions (NRADs) implemented in get_nrad()

ClustIRR 1.9.10

• bigfixes in joint graph building * when clustering both CDR3a/CDR3b, CDR3b edges between-repertoires got deleted * one between-repertoire edge between two clones with double edges was deleted

ClustIRR 1.9.9

• get_blosum() bugfix -> identical CDR3 did not form edges in certain cases
• added test-get_blosum.R

ClustIRR 1.9.2

• K-nearest-neighbor approximation implemented
• get_cosine_similarity to compare community abundance overlap

ClustIRR 1.7.7

• Bugfix, model improvement

ClustIRR 1.7.3

• Function for quantifying community purity wrt node features

ClustIRR 1.5.41

• Function for community inspection/decoding

ClustIRR 1.5.36

• Two function for visualization of results: get_honeycombs and get_beta_violins

ClustIRR 1.3.34

• Stable version but not tested

ClustIRR 1.3.25

• Major changes since this version including * community detection * Stan model-based differential community occupancy * supporting functions

ClustIRR 1.3.20

• Future based parallelization in clustering and graphing

ClustIRR 1.3.1

• Stub functions for integration of data from VDJdb, TCR3d and MCPAS-TCR

ClustIRR 1.1.10

• New global clustering solution

ClustIRR 0.99.28-29

• Accepted in Bioconductor Chainges in version 1.1.5 (20 Dec, 2023)
• New graph generating and plotting functions

ClustIRR 0.99.20-0.99.26

• Functions added for: graph building, joining, plotting
• S4 object accessors added

ClustIRR 0.99.16

• Changes after first round of review done
• Now we have two versions (old version=1 removed, unused)
• S4 object output of clust_irr

ClustIRR 0.99.4

• Build errors/warnings fixed

ClustIRR 0.99.0

• Submitted to Bioconductor