Issues

• IndexError: list index out of range

  JiekaiLab/scTE#117 · Filter by author trietkiet opened on Apr 25, 2026

• scTE: error: argument -CB: invalid choice: 'CB:Z' (choose from CR, CB, False)

  JiekaiLab/scTE#116 · Filter by author katsikora opened on Mar 20, 2026
  2

• Smart-seq2

  JiekaiLab/scTE#115 · Filter by author Fal564656 opened on Jul 7, 2025

• Unable to locate .bed.gz output

  JiekaiLab/scTE#114 · Filter by author HElias01 opened on May 17, 2025
  1

• ValueError: X needs to be 2-dimensional, not 1-dimensional.

  JiekaiLab/scTE#113 · Filter by author Jinloong-dream opened on May 8, 2025
  1

• scATAC of scTE

  JiekaiLab/scTE#111 · Filter by author crystal0721 opened on Apr 1, 2025

• mkdir code fails to use full path specified with -o option

  JiekaiLab/scTE#109 · Filter by author buddej opened on Jan 24, 2025

• Cell number from scTE were not consistent with cellranger

  JiekaiLab/scTE#108 · Filter by author sixingchen718 opened on Dec 17, 2024
  1

• No mitochondrial genes after the run

  JiekaiLab/scTE#107 · Filter by author l1y1y opened on Dec 4, 2024
  2

• Error: X needs to be 2-dimensional, not 1-dimensional for bam file with more than 3000 cells

  JiekaiLab/scTE#106 · Filter by author OwenHoare1989 opened on Nov 21, 2024
  3

• Could you please check if there is an issue with my script? I’ve been running it for several days, but there are no results being output.

  JiekaiLab/scTE#105 · Filter by author l1y1y opened on Nov 14, 2024

• suggestions for installation

  JiekaiLab/scTE#104 · Filter by author jennifersun09b opened on Nov 14, 2024

• TypeError: unsupported operand type(s) for |: 'type' and 'type'

  JiekaiLab/scTE#103 · Filter by author robertdubineinsteinmed opened on Oct 21, 2024
  1

• How to calculate TE align regions use scTE genome indices

  JiekaiLab/scTE#102 · Filter by author synnimeng opened on Oct 21, 2024

• TE names

  JiekaiLab/scTE#100 · Filter by author juliaSid opened on Aug 8, 2024

• The number of cells is not consistent with the result of cellranger

  JiekaiLab/scTE#96 · Filter by author Yuanqingq opened on Jun 10, 2024
  1

• RNA-seq data processing

  JiekaiLab/scTE#94 · Filter by author l1y1y opened on May 25, 2024
  5

• scTEATAC error

  JiekaiLab/scTE#93 · Filter by author cyyisbest opened on May 22, 2024

• Questions regarding preprocessing and integration of scTE with other tools

  JiekaiLab/scTE#92 · Filter by author zerostwo opened on May 13, 2024
  1

• How touse output from scTE pipeline to generate a Seurat object

  JiekaiLab/scTE#91 · Filter by author OwenHoare1989 opened on May 10, 2024

• Why do I encounter this error when opening scTE?

  JiekaiLab/scTE#90 · Filter by author l1y1y opened on May 8, 2024
  6

• Requires python >= 3.9, not 3.6

  JiekaiLab/scTE#89 · Filter by author dannyconrad opened on Apr 24, 2024
  12

• filterCRs IndexError:list index out of range

  JiekaiLab/scTE#88 · Filter by author bio-xtt opened on Apr 24, 2024
  7

• gene expression from scTE were not consistent with cellranger

  JiekaiLab/scTE#87 · Filter by author baishengjun opened on Apr 17, 2024
  2

• ValueError: Invalid Mode: uR

  JiekaiLab/scTE#85 · Filter by author Kiliankleemann opened on Apr 12, 2024
  5