Upload 7 files
Browse files- .gitattributes +2 -0
- README.md +27 -0
- test/data.mdb +3 -0
- test/lock.mdb +0 -0
- train/data.mdb +3 -0
- train/lock.mdb +0 -0
- valid/data.mdb +0 -0
- valid/lock.mdb +0 -0
.gitattributes
CHANGED
|
@@ -53,3 +53,5 @@ 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
|
README.md
CHANGED
|
@@ -1,3 +1,30 @@
|
|
| 1 |
---
|
| 2 |
license: mit
|
| 3 |
---
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
---
|
| 2 |
license: mit
|
| 3 |
---
|
| 4 |
+
# Description
|
| 5 |
+
Stability Landscape Prediction is a regression task where each input protein *x* is mapped to a label *y* ∈ *R* measuring the most extreme circumstances in which protein *x* maintains its fold above a concentration threshold (a proxy for intrinsic stability).
|
| 6 |
+
|
| 7 |
+
# Splits
|
| 8 |
+
|
| 9 |
+
**Structure type:** None
|
| 10 |
+
|
| 11 |
+
The dataset is from [**Evaluating Protein Transfer Learning with TAPE**](https://arxiv.org/abs/1906.08230). We follow the original data splits, with the number of training, validation and test set shown below:
|
| 12 |
+
|
| 13 |
+
- Train: 53614
|
| 14 |
+
- Valid: 2512
|
| 15 |
+
- Test: 12851
|
| 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:d41a0bb1b53638fc061dd0a1e12cebcb868c67b0acc9ed8e3bdf22ba229b7e81
|
| 3 |
+
size 3350528
|
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 sha256:903293192a4a2531d481ba3cd7c87775a1b219b86715751ffeec2958d084ec3c
|
| 3 |
+
size 14176256
|
train/lock.mdb
ADDED
|
Binary file (8.19 kB). View file
|
|
|
valid/data.mdb
ADDED
|
Binary file (717 kB). View file
|
|
|
valid/lock.mdb
ADDED
|
Binary file (8.19 kB). View file
|
|
|