Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/a2fc5db093363b30281313e4b07167c34a45640fcontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library a2fc5db093363b30281313e4b07167c34a45640f
Description
Labels
  • assay: 10x_Multiome
  • brain_region: basal ganglia
  • cell_meta_resource_id: summary/johansen2025Crossspecies/10x_multiomics_cell_meta_data
  • data_types: fragments
  • dataset: johansen2025Crossspecies
  • library: a2fc5db093363b30281313e4b07167c34a45640f
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2013_A01
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GGTAGGAGTAACCACA-2013_A01, GTGTTACAGTGAGAGC-2013_A01, GTCTAATCATCACTTC-2013_A01, CCCGCAACACAGACTC-2013_A01, GATTAGTGTCTTGCAT-2013_A01 (top 5 of 5009 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
191,793,299
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 191793299
chr1 17220711
chr2 14830953
chr3 12187134
chr4 9796365
chr5 10424737
chr6 10518174
chr7 10057684
chr8 8583327
chr9 8328028
chr10 8942951
chr11 10212974
chr12 9346564
chr13 5266538
chr14 6417862
chr15 5779985
chr16 7007033
chr17 8695347
chr18 4383154
chr19 7962501
chr20 5035406
chr21 2390394
chr22 3961003
chrX 4092450
chrY 308281
GL000009.2 1412
GL000194.1 5126
GL000195.1 7268
GL000205.2 11305
GL000213.1 27
GL000218.1 1577
GL000219.1 6322
KI270711.1 220
KI270713.1 5807
KI270721.1 189
KI270726.1 208
KI270727.1 486
KI270728.1 3170
KI270731.1 62
KI270734.1 564

Fragment lengths

fragments min max mean median
fragments 191793299 1 5033 169.68 149
global fragment-length histogram

Files

Filename Size md5
a2fc5db093363b30281313e4b07167c34a45640f.gz 1.78 GB 8a993fd4cc282d8f99ca40d601a040b1
a2fc5db093363b30281313e4b07167c34a45640f.gz.tbi 1014.46 KB 1402172f64c672c03fd42719573e1060
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 43fbe411d9ec83e9b560c9f7a3df587d
statistics/