Alternatives and similar repositories for TE_expression_in_scRNAseq

Users that are interested in TE_expression_in_scRNAseq are comparing it to the libraries listed below

• ManchesterBioinference / IntegratingATAC-RNA-HiC
  scripts for the integrating ATAC-seq, RNA-seq and CHi-C paper
  ☆24Updated 2 years ago
• YiPeng-Gao / scDaPars
  Dynamic Analysis of Alternative Polyadenylation from single-cell RNA-seq (scDaPars)
  ☆15Updated 4 years ago
• shizhuoxing / scISA-Tools
  single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…
  ☆24Updated 10 months ago
• WRui / Post_Implantation
  ☆27Updated 3 years ago
• navinlabcode / ACT_paper
  Scripts used for the ACT paper
  ☆12Updated 4 years ago
• henssenlab / TreeShapedRearrangements
  Code and data from Koche et al. Extrachromosomal circular DNA drives oncogenic genome remodeling in neuroblastoma (2020)
  ☆15Updated 4 years ago
• mcgilldinglab / MATES
  A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data
  ☆27Updated last month
• tushiqi / MAnorm2
  MAnorm2 for Normalizing and Comparing ChIP-seq Samples
  ☆33Updated 2 years ago
• ElkonLab / scAPA
  This is a package and a shell script for alternative polyadenylation (APA) analysis of 3' tag single-cell RNA-seq data.
  ☆19Updated 3 years ago
• dbrg77 / scATAC_snakemake
  Snakemake pipeline for plate scATAC-seq processing
  ☆26Updated last year
• huyustats / SCATS
  A statistical tool to detect differential alternative splicing events using single-cell RNA-seq
  ☆22Updated last year
• wenweixiong / MARVEL
  ☆49Updated 10 months ago
• bioinfo-biols / Code_for_circSC
  Analysis pipeline for our circSC manuscript
  ☆13Updated 3 years ago
• gxiaolab / scAllele
  ☆34Updated last year
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆41Updated last year
• bodegalab / irescue
  Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq
  ☆17Updated 2 months ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆34Updated 6 months ago
• twlab / TEProf2Paper
  TEProf2 Pipeline used to find promoters and predict protein sequences from RNA-sequencing data
  ☆23Updated 2 years ago
• shunliubio / easym6A
  Process m6A/MeRIP-seq data in a single or batch job mode
  ☆20Updated 5 years ago
• ijuric / MAPS
  ☆19Updated last year
• ChongJenniferZhang / CLCA_WGS
  ☆25Updated last year
• Henikoff / scCUT-Tag
  ☆17Updated 2 years ago
• TheJacksonLaboratory / BRCA-LRseq-pipeline
  Pipeline to analyze long-read mRNA isoforms and ORF products sequenced in breast cancer using PacBio Single-Molecule technology.
  ☆15Updated 3 years ago
• ans4013 / ScisorWiz
  ScisorWiz: Differential Isoform Visualizer for Long-Read RNA Sequencing Data
  ☆16Updated last year
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆33Updated 3 years ago
• crickbabs / DRB_TT-seq
  Scripts for the analysis of TT-seq and DRB/TT-seq data.
  ☆10Updated 5 years ago
• cyang235 / smooth-seq
  A pipeline for Smooth-seq data analysis.
  ☆10Updated 3 years ago
• kundajelab / ataqc
  ☆17Updated 6 years ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated 11 months ago
• jw156605 / SingleSplice
  Algorithm for detecting alternative splicing in a population of single cells. See details in Welch et al., Nucleic Acids Research 2016: h…
  ☆21Updated 8 years ago