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- .gitattributes +25 -0
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=10/t=0.5_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=10/t=0.5_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=10/t=0.6_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=10/t=0.6_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=10/t=0.7_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=10/t=0.7_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=10/t=0.8_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=10/t=0.8_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=10/t=0.9_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=10/t=0.9_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=2/t=0.5_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=2/t=0.5_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=2/t=0.6_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=2/t=0.6_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=2/t=0.7_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=2/t=0.7_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=2/t=0.8_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=2/t=0.8_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=2/t=0.9_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=2/t=0.9_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=20/t=0.5_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=20/t=0.5_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=20/t=0.6_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=20/t=0.6_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=20/t=0.7_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=20/t=0.7_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=20/t=0.8_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=20/t=0.8_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=20/t=0.9_ALL_FIELDS.csv.gz +2 -2
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- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=30/t=0.5_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=30/t=0.6_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=30/t=0.6_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=30/t=0.7_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=30/t=0.7_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=30/t=0.8_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=30/t=0.8_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=30/t=0.9_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=30/t=0.9_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.5_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.5_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.6_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.6_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.7_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.7_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.8_ALL_FIELDS.csv.gz +2 -2
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.8_FIELD_CLUSTER_METRICS.csv +13 -13
- data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.9_ALL_FIELDS.csv.gz +2 -2
.gitattributes
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data/clustering/model=NeuML__pubmedbert-base-embeddings/min=5/t=0.7_ALL_FIELDS.csv.gz filter=lfs diff=lfs merge=lfs -text
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data/clustering/model=NeuML__pubmedbert-base-embeddings/min=5/t=0.9_ALL_FIELDS.csv.gz filter=lfs diff=lfs merge=lfs -text
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@@ -1,3 +1,3 @@
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| 1 |
version https://git-lfs.github.com/spec/v1
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oid sha256:
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| 3 |
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size
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| 1 |
version https://git-lfs.github.com/spec/v1
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oid sha256:cab3c8298419fab2b463d1a7638dea8be6dee4fdf2b8b77dfe4adc51b2f63b11
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size 2647240
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data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.7_FIELD_CLUSTER_METRICS.csv
CHANGED
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@@ -1,14 +1,14 @@
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|
| 1 |
field,n_total,n_used,n_clusters,silhouette_cosine,davies_bouldin,min_community_size,threshold
|
| 2 |
-
organism_source,
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| 3 |
-
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| 4 |
-
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| 5 |
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expression_strain,
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| 6 |
-
enzyme_name,
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| 7 |
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plasmid,
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| 8 |
-
molecular_weight,
|
| 9 |
-
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| 10 |
-
|
| 11 |
-
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| 12 |
-
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| 13 |
-
desalting_process,
|
| 14 |
-
source_key,
|
|
|
|
| 1 |
field,n_total,n_used,n_clusters,silhouette_cosine,davies_bouldin,min_community_size,threshold
|
| 2 |
+
organism_source,9834,9490,87,0.934995710849762,0.7748425686762738,5,0.7
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| 3 |
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inducer,11954,11830,66,0.6362406611442566,1.847383782924625,5,0.7
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strain,3834,3105,97,0.5985273718833923,1.388472851140098,5,0.7
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| 5 |
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expression_strain,8268,7782,149,0.5233995318412781,1.3594488507623532,5,0.7
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| 6 |
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enzyme_name,12099,8105,735,0.2582234740257263,1.8682528067894666,5,0.7
|
| 7 |
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plasmid,8217,6561,324,0.14519894123077393,2.196227776943711,5,0.7
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| 8 |
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molecular_weight,495,456,27,0.043932050466537476,2.676914533850017,5,0.7
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| 9 |
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induction_temperature,5383,5340,41,0.01640150509774685,1.7534738503274196,5,0.7
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medium_name,7644,7172,263,-0.007269705645740032,2.2702773330934622,5,0.7
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elution_buffer,5198,4946,169,-0.03873402625322342,2.680737134817065,5,0.7
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lysis_buffer,5625,5454,166,-0.04855545237660408,2.426855043170666,5,0.7
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desalting_process,5540,5311,172,-0.05011814832687378,2.581706090890557,5,0.7
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| 14 |
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source_key,12179,12168,144,-0.10621629655361176,2.5694946326938313,5,0.7
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data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.8_ALL_FIELDS.csv.gz
CHANGED
|
@@ -1,3 +1,3 @@
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|
| 1 |
version https://git-lfs.github.com/spec/v1
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oid sha256:
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| 3 |
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size
|
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| 1 |
version https://git-lfs.github.com/spec/v1
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oid sha256:bf1d8cc3423ee5ab4d45735773c3bf26477b716484561d1a0b386d70e2532ad9
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size 2616448
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data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.8_FIELD_CLUSTER_METRICS.csv
CHANGED
|
@@ -1,14 +1,14 @@
|
|
| 1 |
field,n_total,n_used,n_clusters,silhouette_cosine,davies_bouldin,min_community_size,threshold
|
| 2 |
-
organism_source,
|
| 3 |
-
strain,
|
| 4 |
-
|
| 5 |
-
|
| 6 |
-
|
| 7 |
-
|
| 8 |
-
|
| 9 |
-
medium_name,
|
| 10 |
-
|
| 11 |
-
desalting_process,
|
| 12 |
-
elution_buffer,
|
| 13 |
-
|
| 14 |
-
|
|
|
|
| 1 |
field,n_total,n_used,n_clusters,silhouette_cosine,davies_bouldin,min_community_size,threshold
|
| 2 |
+
organism_source,9834,9327,91,0.9583161473274231,0.46456069446592557,5,0.8
|
| 3 |
+
strain,3834,2782,73,0.7961609363555908,0.6357533527297731,5,0.8
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| 4 |
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expression_strain,8268,7340,131,0.6295028924942017,0.9296579491933901,5,0.8
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| 5 |
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inducer,11954,11611,107,0.5367256999015808,1.7571414370821283,5,0.8
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| 6 |
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induction_temperature,5383,5235,57,0.5110968351364136,1.169708001254173,5,0.8
|
| 7 |
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enzyme_name,12099,4556,479,0.45910632610321045,1.273816986927687,5,0.8
|
| 8 |
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plasmid,8217,4735,281,0.25269994139671326,1.5412343878862145,5,0.8
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medium_name,7644,5760,330,0.23141148686408997,1.7789327516664015,5,0.8
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| 10 |
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molecular_weight,495,347,34,0.18894857168197632,1.888895408862957,5,0.8
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desalting_process,5540,4271,260,0.10978957265615463,2.0963058721830907,5,0.8
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elution_buffer,5198,4030,246,0.0891888216137886,2.060596387071092,5,0.8
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| 13 |
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lysis_buffer,5625,4633,268,0.05599077045917511,2.0999354627747873,5,0.8
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| 14 |
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source_key,12179,11923,487,0.0509500578045845,2.059142146634667,5,0.8
|
data/clustering/model=cambridgeltl__SapBERT-from-PubMedBERT-fulltext/min=5/t=0.9_ALL_FIELDS.csv.gz
CHANGED
|
@@ -1,3 +1,3 @@
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|
| 1 |
version https://git-lfs.github.com/spec/v1
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| 2 |
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oid sha256:
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| 3 |
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size
|
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| 1 |
version https://git-lfs.github.com/spec/v1
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oid sha256:a5059c48537a455eb273fc37ab24cd284cf6ab059326eb7e5b27b5a7753e150b
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size 2430253
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