ctheodoris
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Upload example fine-tuning datasets
Browse files- example_input_files/cell_classification/cell_type_annotation/cell_type_test_data.dataset/dataset.arrow +3 -0
- example_input_files/cell_classification/cell_type_annotation/cell_type_test_data.dataset/dataset_info.json +3 -0
- example_input_files/cell_classification/cell_type_annotation/cell_type_test_data.dataset/state.json +3 -0
- example_input_files/cell_classification/cell_type_annotation/cell_type_train_data.dataset/dataset.arrow +3 -0
- example_input_files/cell_classification/cell_type_annotation/cell_type_train_data.dataset/dataset_info.json +3 -0
- example_input_files/cell_classification/cell_type_annotation/cell_type_train_data.dataset/state.json +3 -0
- example_input_files/gene_classification/bivalent_promoters/bivalent_gene_labels.txt +107 -0
- example_input_files/gene_classification/bivalent_promoters/lys4_only_gene_labels.txt +80 -0
- example_input_files/gene_classification/bivalent_promoters/no_methylation_gene_labels.txt +42 -0
- example_input_files/gene_classification/bivalent_promoters/panglao_SRA553822-SRS2119548.dataset/dataset.arrow +3 -0
- example_input_files/gene_classification/bivalent_promoters/panglao_SRA553822-SRS2119548.dataset/dataset_info.json +3 -0
- example_input_files/gene_classification/bivalent_promoters/panglao_SRA553822-SRS2119548.dataset/state.json +3 -0
- example_input_files/gene_classification/dosage_sensitive_tfs/README.md +1 -0
- example_input_files/gene_classification/dosage_sensitive_tfs/dosage_sens_tf_labels.csv +369 -0
- example_input_files/gene_info_table.csv +0 -0
example_input_files/cell_classification/cell_type_annotation/cell_type_test_data.dataset/dataset.arrow
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example_input_files/cell_classification/cell_type_annotation/cell_type_test_data.dataset/dataset_info.json
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example_input_files/cell_classification/cell_type_annotation/cell_type_test_data.dataset/state.json
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example_input_files/cell_classification/cell_type_annotation/cell_type_train_data.dataset/dataset.arrow
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example_input_files/cell_classification/cell_type_annotation/cell_type_train_data.dataset/dataset_info.json
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example_input_files/cell_classification/cell_type_annotation/cell_type_train_data.dataset/state.json
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version https://git-lfs.github.com/spec/v1
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example_input_files/gene_classification/bivalent_promoters/bivalent_gene_labels.txt
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example_input_files/gene_classification/bivalent_promoters/lys4_only_gene_labels.txt
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example_input_files/gene_classification/bivalent_promoters/no_methylation_gene_labels.txt
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example_input_files/gene_classification/bivalent_promoters/panglao_SRA553822-SRS2119548.dataset/dataset.arrow
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version https://git-lfs.github.com/spec/v1
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oid sha256:b12fd397c154a32257258e4946e784cc61808777400587a387fc15fd51bb331c
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size 56383064
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example_input_files/gene_classification/bivalent_promoters/panglao_SRA553822-SRS2119548.dataset/dataset_info.json
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version https://git-lfs.github.com/spec/v1
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oid sha256:ff9af262098e7ab85a3e2b73dfa371f77bce15b6f956f9c62509e72c5fba3b3e
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size 646
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example_input_files/gene_classification/bivalent_promoters/panglao_SRA553822-SRS2119548.dataset/state.json
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version https://git-lfs.github.com/spec/v1
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oid sha256:8b6551ec978a08f9da8c9461a4b73a272c68acccfb30503c5d79854369ccaef7
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size 383
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example_input_files/gene_classification/dosage_sensitive_tfs/README.md
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The fine-tuning dataset for transcription factor dosage sensitivity application is 10,000 random cells from Genecorpus-30M. Please note that Genecorpus-30M is a large dataset so loading it for the first time may take some time. The Huggingface .dataset format is designed to cache the data though so future usage will be faster in that this cache allows Datasets to avoid re-processing the entire dataset with each use.
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example_input_files/gene_classification/dosage_sensitive_tfs/dosage_sens_tf_labels.csv
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1 |
+
dosage_sensitive,dosage_insensitive
|
2 |
+
ENSG00000008197,ENSG00000010539
|
3 |
+
ENSG00000008441,ENSG00000011590
|
4 |
+
ENSG00000010818,ENSG00000063438
|
5 |
+
ENSG00000011332,ENSG00000063587
|
6 |
+
ENSG00000030419,ENSG00000064218
|
7 |
+
ENSG00000062194,ENSG00000064489
|
8 |
+
ENSG00000065970,ENSG00000067646
|
9 |
+
ENSG00000067082,ENSG00000075407
|
10 |
+
ENSG00000069667,ENSG00000079263
|
11 |
+
ENSG00000072736,ENSG00000081386
|
12 |
+
ENSG00000073282,ENSG00000083812
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13 |
+
ENSG00000073861,ENSG00000083814
|
14 |
+
ENSG00000077092,ENSG00000083828
|
15 |
+
ENSG00000083307,ENSG00000083838
|
16 |
+
ENSG00000084676,ENSG00000083844
|
17 |
+
ENSG00000085276,ENSG00000085644
|
18 |
+
ENSG00000087510,ENSG00000089335
|
19 |
+
ENSG00000087903,ENSG00000089775
|
20 |
+
ENSG00000089225,ENSG00000102901
|
21 |
+
ENSG00000091656,ENSG00000103199
|
22 |
+
ENSG00000091831,ENSG00000105136
|
23 |
+
ENSG00000095951,ENSG00000105610
|
24 |
+
ENSG00000100644,ENSG00000105672
|
25 |
+
ENSG00000100968,ENSG00000106410
|
26 |
+
ENSG00000101076,ENSG00000106948
|
27 |
+
ENSG00000101412,ENSG00000109705
|
28 |
+
ENSG00000102870,ENSG00000115568
|
29 |
+
ENSG00000102935,ENSG00000117010
|
30 |
+
ENSG00000103449,ENSG00000118620
|
31 |
+
ENSG00000105698,ENSG00000119574
|
32 |
+
ENSG00000105866,ENSG00000120669
|
33 |
+
ENSG00000106689,ENSG00000121406
|
34 |
+
ENSG00000106852,ENSG00000121864
|
35 |
+
ENSG00000111249,ENSG00000122085
|
36 |
+
ENSG00000111783,ENSG00000124203
|
37 |
+
ENSG00000112033,ENSG00000124232
|
38 |
+
ENSG00000112246,ENSG00000124444
|
39 |
+
ENSG00000112561,ENSG00000124613
|
40 |
+
ENSG00000112837,ENSG00000125520
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41 |
+
ENSG00000115112,ENSG00000127081
|
42 |
+
ENSG00000116809,ENSG00000127903
|
43 |
+
ENSG00000116833,ENSG00000127989
|
44 |
+
ENSG00000117000,ENSG00000129028
|
45 |
+
ENSG00000118263,ENSG00000129071
|
46 |
+
ENSG00000118922,ENSG00000129194
|
47 |
+
ENSG00000119547,ENSG00000130544
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48 |
+
ENSG00000120798,ENSG00000130818
|
49 |
+
ENSG00000121068,ENSG00000131848
|
50 |
+
ENSG00000123358,ENSG00000132010
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51 |
+
ENSG00000123411,ENSG00000132846
|
52 |
+
ENSG00000124496,ENSG00000133250
|
53 |
+
ENSG00000124813,ENSG00000134874
|
54 |
+
ENSG00000125398,ENSG00000135899
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55 |
+
ENSG00000125618,ENSG00000136866
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56 |
+
ENSG00000126368,ENSG00000137185
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57 |
+
ENSG00000127152,ENSG00000137504
|
58 |
+
ENSG00000128573,ENSG00000138380
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59 |
+
ENSG00000129173,ENSG00000140993
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60 |
+
ENSG00000131759,ENSG00000141946
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61 |
+
ENSG00000132005,ENSG00000142556
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62 |
+
ENSG00000133794,ENSG00000143067
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63 |
+
ENSG00000134046,ENSG00000144026
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64 |
+
ENSG00000134317,ENSG00000144161
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65 |
+
ENSG00000134323,ENSG00000145908
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66 |
+
ENSG00000134852,ENSG00000146587
|
67 |
+
ENSG00000135111,ENSG00000147183
|
68 |
+
ENSG00000137203,ENSG00000147789
|
69 |
+
ENSG00000137270,ENSG00000148300
|
70 |
+
ENSG00000138795,ENSG00000149054
|
71 |
+
ENSG00000139083,ENSG00000149922
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72 |
+
ENSG00000139793,ENSG00000151500
|
73 |
+
ENSG00000140548,ENSG00000151650
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74 |
+
ENSG00000140968,ENSG00000151657
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75 |
+
ENSG00000142611,ENSG00000152439
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76 |
+
ENSG00000143033,ENSG00000152467
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77 |
+
ENSG00000143171,ENSG00000152475
|
78 |
+
ENSG00000143190,ENSG00000153975
|
79 |
+
ENSG00000143355,ENSG00000155592
|
80 |
+
ENSG00000143365,ENSG00000156469
|
81 |
+
ENSG00000143373,ENSG00000157429
|
82 |
+
ENSG00000143437,ENSG00000159882
|
83 |
+
ENSG00000144355,ENSG00000159885
|
84 |
+
ENSG00000147862,ENSG00000159915
|
85 |
+
ENSG00000148516,ENSG00000160224
|
86 |
+
ENSG00000150907,ENSG00000160229
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87 |
+
ENSG00000151090,ENSG00000160352
|
88 |
+
ENSG00000153234,ENSG00000160908
|
89 |
+
ENSG00000158055,ENSG00000160961
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+
ENSG00000160007,ENSG00000161277
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ENSG00000160094,ENSG00000162086
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92 |
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ENSG00000161405,ENSG00000163516
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93 |
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ENSG00000162761,ENSG00000164011
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94 |
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ENSG00000162924,ENSG00000164048
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ENSG00000164684,ENSG00000164299
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97 |
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ENSG00000167182,ENSG00000165066
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98 |
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ENSG00000168610,ENSG00000165512
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ENSG00000169554,ENSG00000165684
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ENSG00000172733,ENSG00000166860
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104 |
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106 |
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ENSG00000178177,ENSG00000167554
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107 |
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ENSG00000179348,ENSG00000167625
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108 |
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ENSG00000179361,ENSG00000167785
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109 |
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|
110 |
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ENSG00000180357,ENSG00000167840
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111 |
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ENSG00000185551,ENSG00000167962
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112 |
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ENSG00000185591,ENSG00000167981
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113 |
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ENSG00000187098,ENSG00000168152
|
114 |
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ENSG00000187605,ENSG00000168286
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115 |
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ENSG00000189308,ENSG00000168769
|
116 |
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ENSG00000196092,ENSG00000169131
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117 |
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ENSG00000196482,ENSG00000169136
|
118 |
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ENSG00000196628,ENSG00000169548
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119 |
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|
120 |
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ENSG00000198815,ENSG00000169955
|
121 |
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ENSG00000198945,ENSG00000169989
|
122 |
+
ENSG00000198963,ENSG00000170260
|
123 |
+
ENSG00000204231,ENSG00000170608
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124 |
+
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|
125 |
+
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|
126 |
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|
127 |
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|
128 |
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|
129 |
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130 |
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|
131 |
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132 |
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133 |
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|
134 |
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135 |
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136 |
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137 |
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138 |
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139 |
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|
140 |
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|
141 |
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|
142 |
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|
143 |
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|
144 |
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|
145 |
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|
146 |
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|
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|
148 |
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|
149 |
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|
150 |
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|
151 |
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|
152 |
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|
153 |
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154 |
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|
155 |
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|
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|
157 |
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158 |
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|
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|
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|
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|
165 |
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|
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+
,ENSG00000204532
|
306 |
+
,ENSG00000204595
|
307 |
+
,ENSG00000204604
|
308 |
+
,ENSG00000204644
|
309 |
+
,ENSG00000204946
|
310 |
+
,ENSG00000213020
|
311 |
+
,ENSG00000213799
|
312 |
+
,ENSG00000213973
|
313 |
+
,ENSG00000213988
|
314 |
+
,ENSG00000214189
|
315 |
+
,ENSG00000215271
|
316 |
+
,ENSG00000215372
|
317 |
+
,ENSG00000215612
|
318 |
+
,ENSG00000220201
|
319 |
+
,ENSG00000221923
|
320 |
+
,ENSG00000223547
|
321 |
+
,ENSG00000227124
|
322 |
+
,ENSG00000229676
|
323 |
+
,ENSG00000229809
|
324 |
+
,ENSG00000230797
|
325 |
+
,ENSG00000232040
|
326 |
+
,ENSG00000234284
|
327 |
+
,ENSG00000234444
|
328 |
+
,ENSG00000235109
|
329 |
+
,ENSG00000235608
|
330 |
+
,ENSG00000236104
|
331 |
+
,ENSG00000236609
|
332 |
+
,ENSG00000237440
|
333 |
+
,ENSG00000242852
|
334 |
+
,ENSG00000243660
|
335 |
+
,ENSG00000245680
|
336 |
+
,ENSG00000248483
|
337 |
+
,ENSG00000249459
|
338 |
+
,ENSG00000249471
|
339 |
+
,ENSG00000249709
|
340 |
+
,ENSG00000250571
|
341 |
+
,ENSG00000250709
|
342 |
+
,ENSG00000251192
|
343 |
+
,ENSG00000251247
|
344 |
+
,ENSG00000251369
|
345 |
+
,ENSG00000253831
|
346 |
+
,ENSG00000254004
|
347 |
+
,ENSG00000256087
|
348 |
+
,ENSG00000256223
|
349 |
+
,ENSG00000256229
|
350 |
+
,ENSG00000256294
|
351 |
+
,ENSG00000256463
|
352 |
+
,ENSG00000256683
|
353 |
+
,ENSG00000256771
|
354 |
+
,ENSG00000257446
|
355 |
+
,ENSG00000257591
|
356 |
+
,ENSG00000258405
|
357 |
+
,ENSG00000258873
|
358 |
+
,ENSG00000263002
|
359 |
+
,ENSG00000264668
|
360 |
+
,ENSG00000265763
|
361 |
+
,ENSG00000267041
|
362 |
+
,ENSG00000267179
|
363 |
+
,ENSG00000267281
|
364 |
+
,ENSG00000267508
|
365 |
+
,ENSG00000267680
|
366 |
+
,ENSG00000269067
|
367 |
+
,ENSG00000269343
|
368 |
+
,ENSG00000269699
|
369 |
+
,ENSG00000272602
|
example_input_files/gene_info_table.csv
ADDED
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|
|