Datasets:
File size: 1,330 Bytes
fd00522 | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 | {
"view": "SD",
"view_description": "background-masked + density-augmented cell crop",
"files": {
"cell.bin": {
"channels": [
"DNA",
"AGP",
"ER",
"Mito",
"RNA"
],
"stains": {
"DNA": "Hoechst 33342",
"AGP": "Phalloidin + WGA",
"ER": "Concanavalin A",
"Mito": "MitoTracker Deep Red",
"RNA": "SYTO 14"
},
"shape": [
5,
224,
224
],
"dtype": "uint8",
"layout": "channel-first (C, H, W)",
"encoding": "raw bytes; np.frombuffer(blob, dtype=np.uint8).reshape(5, 224, 224)"
},
"mask.bin": {
"channels": [
"nucleus",
"cell"
],
"shape": [
2,
224,
224
],
"dtype": "uint8",
"layout": "channel-first (C, H, W)",
"encoding": "raw bytes; np.frombuffer(blob, dtype=np.uint8).reshape(2, 224, 224)"
}
},
"notes": [
"On-disk channel order [DNA, AGP, ER, Mito, RNA] differs from the JUMP-CP v2 publication order [DNA, ER, RNA, AGP, Mito] and from the Recursion RxRx order [DNA, ER, AGP, RNA, Mito, ...].",
"Loaders must remap by name, not by index, when combining JUMP with other Cell Painting datasets.",
"Mask channels are [nucleus, cell] \u2014 both binary uint8."
]
} |