Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/c0ddc979be4e81a7d8a016f0e85b2d1db1f76a40content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library c0ddc979be4e81a7d8a016f0e85b2d1db1f76a40
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: c0ddc979be4e81a7d8a016f0e85b2d1db1f76a40
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2513_C04
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GGTCGGTTCGTTTCGC-2513_C04, CGTGTGTCATGCTTAG-2513_C04, CCCGTAAAGAGAAGGG-2513_C04, TCATGTTTCTTGCAGG-2513_C04, GTGAGGAGTGTTGCTT-2513_C04 (top 5 of 4126 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
192,074,426
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 192074426
chr1 16887297
chr2 15102200
chr3 12678015
chr4 10247995
chr5 10771129
chr6 10640605
chr7 10286246
chr8 8877335
chr9 7885259
chr10 8860569
chr11 10015926
chr12 9318160
chr13 5377692
chr14 6376404
chr15 5962944
chr16 6922462
chr17 7958545
chr18 4509969
chr19 6819615
chr20 5003455
chr21 2292739
chr22 3895976
chrX 5324417
chrY 15719
GL000009.2 1440
GL000194.1 4063
GL000195.1 4229
GL000205.2 12277
GL000213.1 151
GL000218.1 2860
GL000219.1 11481
KI270711.1 471
KI270713.1 2682
KI270721.1 202
KI270726.1 21
KI270727.1 690
KI270728.1 2447
KI270731.1 182
KI270734.1 557

Fragment lengths

fragments min max mean median
fragments 192074426 1 5038 185.64 156
global fragment-length histogram

Files

Filename Size md5
c0ddc979be4e81a7d8a016f0e85b2d1db1f76a40.gz 1.83 GB 1ac8b461fcc76445f49906e3f82d9a95
c0ddc979be4e81a7d8a016f0e85b2d1db1f76a40.gz.tbi 1.03 MB 21b98e35946076345d3586ab2edef3b1
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 3baea31955e617749d7b3cf501caa70d
statistics/