Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/d6f4b35170f81a12f05d0971c4c0900c8b3a40f0content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library d6f4b35170f81a12f05d0971c4c0900c8b3a40f0
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: d6f4b35170f81a12f05d0971c4c0900c8b3a40f0
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2349_B08
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CAGCAAGCAAGTGTTT-2349_B08, GCTTTACGTATCTGGA-2349_B08, GGCATGGAGGAAGCAC-2349_B08, CAAAGTGAGACAGGTA-2349_B08, AACTGTTCAGCTTACA-2349_B08 (top 5 of 4537 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
262,224,302
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 262224302
chr1 23501390
chr2 20398484
chr3 16977802
chr4 13313154
chr5 14334960
chr6 14632896
chr7 14040156
chr8 11737800
chr9 10870521
chr10 12246224
chr11 14126283
chr12 12930603
chr13 6964305
chr14 8860437
chr15 8140840
chr16 9833952
chr17 11672752
chr18 5899854
chr19 10568582
chr20 6904940
chr21 3008455
chr22 5471838
chrX 5421782
chrY 321463
GL000009.2 559
GL000194.1 4447
GL000195.1 7504
GL000205.2 12799
GL000213.1 44
GL000218.1 1708
GL000219.1 10027
KI270711.1 480
KI270713.1 5688
KI270721.1 223
KI270726.1 28
KI270727.1 135
KI270728.1 494
KI270731.1 161
KI270734.1 532

Fragment lengths

fragments min max mean median
fragments 262224302 1 5040 211.01 171
global fragment-length histogram

Files

Filename Size md5
d6f4b35170f81a12f05d0971c4c0900c8b3a40f0.gz 2.39 GB e2987b23577ec99ea4756b9f62efb9a5
d6f4b35170f81a12f05d0971c4c0900c8b3a40f0.gz.tbi 1.15 MB 6a6e0b2bf4683463627cf2519ff17ae8
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB a5cf443faada512b1fd58e2138717dc8
statistics/