Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/3ee91edac530b1f0f50268ea918db6986a02ded9content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 3ee91edac530b1f0f50268ea918db6986a02ded9
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: 3ee91edac530b1f0f50268ea918db6986a02ded9
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 988_D05
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GTCCAAGTCGTTAGCG-988_D05, CTCACTCAGGAGTCGG-988_D05, GCACGGTTCATTTGTC-988_D05, TTTGTCCCAGAGAGCC-988_D05, GAGCTGCTCCATCAGG-988_D05 (top 5 of 7040 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
236,340,389
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 236340389
chr1 20330020
chr2 18884331
chr3 15816579
chr4 13102075
chr5 13548967
chr6 13239462
chr7 12824098
chr8 11157951
chr9 9748863
chr10 11102774
chr11 12158129
chr12 11598049
chr13 6838964
chr14 7848890
chr15 7119997
chr16 7994887
chr17 9210639
chr18 5678690
chr19 7674388
chr20 6014669
chr21 2814344
chr22 4422627
chrX 7132687
chrY 17946
GL000009.2 1902
GL000194.1 5275
GL000195.1 5645
GL000205.2 13587
GL000213.1 189
GL000218.1 4171
GL000219.1 19056
KI270711.1 557
KI270713.1 3166
KI270721.1 121
KI270726.1 257
KI270727.1 436
KI270728.1 5262
KI270731.1 363
KI270734.1 376

Fragment lengths

fragments min max mean median
fragments 236340389 1 5039 169.04 160
global fragment-length histogram

Files

Filename Size md5
3ee91edac530b1f0f50268ea918db6986a02ded9.gz 2.28 GB ab42dd506a2bacecfd1ef75e6aa4677b
3ee91edac530b1f0f50268ea918db6986a02ded9.gz.tbi 1.17 MB 71fe4b05a1fd79704fc94bc5fc1fdd13
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 405f49221bf4fd02b1b123ac54b38e82
statistics/