Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/bc3dee6891a1fd1b0e5f9913fd283b872cbfd056content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library bc3dee6891a1fd1b0e5f9913fd283b872cbfd056
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: bc3dee6891a1fd1b0e5f9913fd283b872cbfd056
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2471_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 TGGCTATAGCTGGACC-2471_C04, GCAAGTGCAACAGCCT-2471_C04, GAGGTGAGTCATGCCC-2471_C04, ATTTGCAAGTTGGCCA-2471_C04, GGTGAGGTCAGGCCTA-2471_C04 (top 5 of 4373 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
203,356,747
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 203356747
chr1 18080777
chr2 16030156
chr3 13322481
chr4 10602248
chr5 11191621
chr6 11283536
chr7 10974919
chr8 9317154
chr9 8527985
chr10 9461369
chr11 10791227
chr12 9982582
chr13 5630477
chr14 6869000
chr15 6260826
chr16 7393933
chr17 8707974
chr18 4716342
chr19 7532493
chr20 5356467
chr21 2431800
chr22 4181918
chrX 4336185
chrY 330751
GL000009.2 1613
GL000194.1 3622
GL000195.1 4174
GL000205.2 10428
GL000213.1 8
GL000218.1 4405
GL000219.1 12152
KI270711.1 662
KI270713.1 3527
KI270721.1 175
KI270726.1 37
KI270727.1 245
KI270728.1 613
KI270731.1 120
KI270734.1 745

Fragment lengths

fragments min max mean median
fragments 203356747 1 5035 188.09 161
global fragment-length histogram

Files

Filename Size md5
bc3dee6891a1fd1b0e5f9913fd283b872cbfd056.gz 1.92 GB 120670c47da43aa67c87160250d517d3
bc3dee6891a1fd1b0e5f9913fd283b872cbfd056.gz.tbi 1.03 MB 816df8b16afffd1f73e95078cf68eeb7
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 003ec26d83cb4ec55d1bd45f2f5fa132
statistics/