Upload dnalongbench dataset

.gitattributes

@@ -58,3 +58,4 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 *.mp4 filter=lfs diff=lfs merge=lfs -text
 *.webm filter=lfs diff=lfs merge=lfs -text
 eQTL/seqs/hg38.fa filter=lfs diff=lfs merge=lfs -text
+enhancer_target_gene/seqs/hg19.fa filter=lfs diff=lfs merge=lfs -text

enhancer_target_gene/CRISPRi_EPI_K562_Gasperini_hg19.metric.txt

@@ -0,0 +1 @@
+{"N_gene": 263, "N_EPI": 1671, "train": {"positive": 286, "negative": 692, "total": 978}, "valid": {"positive": 49, "negative": 318, "total": 367}, "test": {"positive": 21, "negative": 305, "total": 326}}

enhancer_target_gene/CRISPRi_EPI_K562_hg19.metric.txt

@@ -0,0 +1 @@
+{"N_gene": 24, "N_EPI": 2602, "train": {"positive": 95, "negative": 1971, "total": 2066}, "valid": {"positive": 28, "negative": 238, "total": 266}, "test": {"positive": 10, "negative": 260, "total": 270}}

enhancer_target_gene/Purturb_seq_EPI_hg19.metric.txt

@@ -0,0 +1 @@
+{"N_gene": 32, "N_EPI": 1261, "train": {"positive": 48, "negative": 935, "total": 983}, "valid": {"positive": 17, "negative": 126, "total": 143}, "test": {"positive": 2, "negative": 133, "total": 135}}

enhancer_target_gene/blacklist/CRISPRi_EPI_K562_Gasperini_hg19.blacklist.bed.gz

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+size 4615

enhancer_target_gene/blacklist/CRISPRi_EPI_K562_hg19.blacklist.bed.gz

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enhancer_target_gene/blacklist/Purturb_seq_EPI_hg19.blacklist.bed.gz

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+size 927

enhancer_target_gene/config/CRISPRi_EPI_K562_Gasperini_hg19.config

@@ -0,0 +1,9 @@
+organism	human	string
+genome_fa	seqs/hg19.fa	string
+seq_len_cutoff	450000	int
+tss_flank_upstream	3000	int
+tss_flank_downstream	3000	int
+region_flank_upstream	500	int
+region_flank_downstream	500	int
+EPI_file	targets/CRISPRi_EPI_K562_Gasperini_hg19.data.tsv	string
+enhancer_tabix_file	blacklist/CRISPRi_EPI_K562_Gasperini_hg19.blacklist.bed.gz	string

enhancer_target_gene/config/CRISPRi_EPI_K562_hg19.config

@@ -0,0 +1,9 @@
+organism	human	string
+genome_fa	seqs/hg19.fa	string
+seq_len_cutoff	450000	int
+tss_flank_upstream	3000	int
+tss_flank_downstream	3000	int
+region_flank_upstream	500	int
+region_flank_downstream	500	int
+EPI_file	targets/CRISPRi_EPI_K562_hg19.data.tsv	string
+enhancer_tabix_file	blacklist/CRISPRi_EPI_K562_hg19.blacklist.bed.gz	string

enhancer_target_gene/config/Pertub_seq_EPI_hg19.config

@@ -0,0 +1,9 @@
+organism	human	string
+genome_fa	seqs/hg19.fa	string
+seq_len_cutoff	450000	int
+tss_flank_upstream	3000	int
+tss_flank_downstream	3000	int
+region_flank_upstream	500	int
+region_flank_downstream	500	int
+EPI_file	targets/Purturb_seq_EPI_hg19.data.tsv	string
+enhancer_tabix_file	blacklist/Purturb_seq_EPI_hg19.blacklist.bed.gz	string

enhancer_target_gene/seqs/hg19.fa

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enhancer_target_gene/seqs/hg19.fa.fai

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+chrM	16571	6	50	51
+chr1	249250621	16915	50	51
+chr2	243199373	254252555	50	51
+chr3	198022430	502315922	50	51
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+chrY	59373566	3097047000	50	51