Alternatives and similar repositories for countsimQC:

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

• statOmics / zingeR
  zero-inflated negative binomial gene expression in R
  ☆20Updated 7 years ago
• Shians / CellBench
  R package for benchmarking single cell analysis methods
  ☆31Updated last year
• Teichlab / GPfates
  ☆19Updated 7 years ago
• mikelove / alpine
  Modeling and correcting fragment sequence bias for RNA-seq
  ☆24Updated 9 months ago
• Bioconductor / BiocWorkshops2019
  The official repository of the Bioconductor 2019 Conference Workshops
  ☆25Updated 2 years ago
• sa-lee / superintronic
  A tidy interface for coverage analysis
  ☆24Updated 5 years ago
• stephaniehicks / methylCC
  R/BioC package to estimate the cell composition of whole blood in DNA methylation samples in microarray or sequencing platforms
  ☆19Updated 2 years ago
• caleblareau / immune_cell_signature_genes
  Repository for signature genes from Immune Cell Atlas
  ☆18Updated 5 years ago
• kkdey / CountClust
  A R package for Grade of Membership model and Visualization of counts data:
  ☆31Updated 4 years ago
• nignatiadis / IHW
  Independent Hypothesis Weighting
  ☆15Updated last year
• statOmics / zinbwaveZinger
  Integrating zingeR with ZINB-WaVE weights
  ☆24Updated 7 years ago
• leekgroup / networks_correction
  Code to reproduce analysis in "Addressing confounding artifacts in reconstruction of gene co-expression networks"
  ☆16Updated 5 years ago
• waldronlab / curatedTCGAData
  Curated Data From The Cancer Genome Atlas (TCGA) as MultiAssayExperiment Objects
  ☆44Updated 4 months ago
• thelovelab / tximeta
  Transcript quantification import with automatic metadata detection
  ☆67Updated last month
• skinnider / dismay
  Calculation of distance metrics for matrices
  ☆25Updated 6 years ago
• lpantano / DEGreport
  Create a cromphensive report of DEG list coming from any analysis of RNAseq data
  ☆24Updated last year
• waldronlab / SingleCellMultiModal
  Single Cell multimodal data scripts for downloading datasets
  ☆17Updated 4 months ago
• kkdey / Logolas
  R package for Enrichment Depletion Logos (EDLogos) and String Logos
  ☆27Updated 6 years ago
• stephaniehicks / qsmooth
  Smooth quantile normalization (qsmooth) is a generalization of quantile normalization, which is an average of the two types of assumption…
  ☆50Updated 2 years ago
• gjhunt / dtangle
  Cell type deconvolution from high-throughput gene expression profiling experiments.
  ☆31Updated 4 years ago
• laurenhsu1 / corral
  Dimensionality reduction and batch integration methods for single cell data
  ☆16Updated 2 years ago
• nghiavtr / ISOP
  Isoform-level expression patterns in single-cell RNA-sequencing data
  ☆11Updated last year
• statOmics / satuRn
  satuRn is a highly performant and scalable method for performing differential transcript usage analyses.
  ☆21Updated 2 years ago
• kauralasoo / wiggleplotr
  A small R package to make sequencing read coverage plots in R.
  ☆37Updated 2 years ago
• federicomarini / ideal
  Interactive Differential Expression AnaLysis - DE made accessible and reproducible
  ☆29Updated 2 weeks ago
• cz-ye / DECENT
  Differential Expression with Capture Efficiency adjustmeNT
  ☆14Updated 2 years ago
• corbinq / apex
  Toolkit for QTL mapping and meta-analysis.
  ☆16Updated 2 years ago
• myles-lewis / glmmSeq
  Gene-level general linear mixed model
  ☆20Updated 2 months ago
• hb-gitified / cellrangerRkit
  Non-official Git repository for R package cellrangerRkit (currently not available elsewhere; I'm not affiliated with 10x)
  ☆19Updated 5 years ago
• limfuxing / ruvIIInb
  This package removes unwanted variation from raw sequencing count data using Negative Binomial and/or Zero Inflated Negative Binomial mod…
  ☆18Updated 9 months ago