LTEnjoy commited on
Commit
a40bfd1
·
verified ·
1 Parent(s): de2051b

Upload 7 files

Browse files
Files changed (8) hide show
  1. .gitattributes +3 -0
  2. README.md +27 -0
  3. test/data.mdb +3 -0
  4. test/lock.mdb +0 -0
  5. train/data.mdb +3 -0
  6. train/lock.mdb +0 -0
  7. valid/data.mdb +3 -0
  8. valid/lock.mdb +0 -0
.gitattributes CHANGED
@@ -53,3 +53,6 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
53
  *.jpg filter=lfs diff=lfs merge=lfs -text
54
  *.jpeg filter=lfs diff=lfs merge=lfs -text
55
  *.webp filter=lfs diff=lfs merge=lfs -text
 
 
 
 
53
  *.jpg filter=lfs diff=lfs merge=lfs -text
54
  *.jpeg filter=lfs diff=lfs merge=lfs -text
55
  *.webp filter=lfs diff=lfs merge=lfs -text
56
+ test/data.mdb filter=lfs diff=lfs merge=lfs -text
57
+ train/data.mdb filter=lfs diff=lfs merge=lfs -text
58
+ valid/data.mdb filter=lfs diff=lfs merge=lfs -text
README.md CHANGED
@@ -1,3 +1,30 @@
1
  ---
2
  license: mit
3
  ---
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
  ---
2
  license: mit
3
  ---
4
+ # Description
5
+ AAV Prediction is a regression task where each input protein *x* is mapped to a label *y* ∈ *R* measuring the fitness score.
6
+
7
+ # Splits
8
+
9
+ **Structure type:** None
10
+
11
+ The dataset is from [**FLIP: Benchmark tasks in fitness landscape inferencefor proteins**](https://www.biorxiv.org/content/10.1101/2021.11.09.467890v2). We follow the original data splits from the "2-vs-rest" branch, with the number of training, validation and test set shown below:
12
+
13
+ - Train: 22246
14
+ - Valid: 2462
15
+ - Test: 50432
16
+
17
+ # Data format
18
+
19
+ We organize all data in LMDB format. The architecture of the databse is like:
20
+
21
+ **length:** The number of samples
22
+
23
+ **0:**
24
+
25
+ - **seq:** The structure-aware sequence
26
+ - **fitness:** fitness label of the sequence
27
+
28
+ **1:**
29
+
30
+ **···**
test/data.mdb ADDED
@@ -0,0 +1,3 @@
 
 
 
 
1
+ version https://git-lfs.github.com/spec/v1
2
+ oid sha256:6cba52b3c1267834b288e25ec5f740231d7380703cc0c4103d4e04c9eb198f16
3
+ size 95977472
test/lock.mdb ADDED
Binary file (8.19 kB). View file
 
train/data.mdb ADDED
@@ -0,0 +1,3 @@
 
 
 
 
1
+ version https://git-lfs.github.com/spec/v1
2
+ oid sha256:46ea532f685e77ee75184a0589e01db7f036e2ed8a33483d405b85b5b80d81e2
3
+ size 42590208
train/lock.mdb ADDED
Binary file (8.19 kB). View file
 
valid/data.mdb ADDED
@@ -0,0 +1,3 @@
 
 
 
 
1
+ version https://git-lfs.github.com/spec/v1
2
+ oid sha256:31a084854a6c46933fcdf9e4936bada19962baada9a9603b0df92b46bd8ea0fe
3
+ size 5132288
valid/lock.mdb ADDED
Binary file (8.19 kB). View file