16 Repositories
Python scrna-seq Libraries
MarcoPolo is a clustering-free approach to the exploration of bimodally expressed genes along with group information in single-cell RNA-seq data
MarcoPolo is a method to discover differentially expressed genes in single-cell RNA-seq data without depending on prior clustering Overview MarcoPolo
13 Dec 18, 2022
scAR (single-cell Ambient Remover) is a package for data denoising in single-cell omics.
scAR scAR (single cell Ambient Remover) is a package for denoising multiple single cell omics data. It can be used for multiple tasks, such as, sgRNA
19 Nov 28, 2022
Python implementation of MULTIseq barcode alignment using fuzzy string matching and GMM barcode assignment
Python implementation of MULTIseq barcode alignment using fuzzy string matching and GMM barcode assignment.
2 Feb 11, 2022
This repository focus on Image Captioning & Video Captioning & Seq-to-Seq Learning & NLP
Awesome-Visual-Captioning Table of Contents ACL-2021 CVPR-2021 AAAI-2021 ACMMM-2020 NeurIPS-2020 ECCV-2020 CVPR-2020 ACL-2020 AAAI-2020 ACL-2019 NeurI
362 Jan 3, 2023
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis. You write a high level configuration file specifying your in
917 Jan 3, 2023
A Parameter-free Deep Embedded Clustering Method for Single-cell RNA-seq Data
A Parameter-free Deep Embedded Clustering Method for Single-cell RNA-seq Data Overview Clustering analysis is widely utilized in single-cell RNA-seque
3 May 8, 2022
dragmap-meth: Fast and accurate aligner for bisulfite sequencing reads using dragmap
dragmap_meth (dragmap_meth.py) Alignment of BS-Seq reads using dragmap. Intro This works for single-end reads and for paired-end reads from the direct
3 Jul 14, 2022
Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"
Scripts for "Current best-practices in single-cell RNA-seq: a tutorial" This repository is complementary to the publication: M.D. Luecken, F.J. Theis,
968 Dec 28, 2022
An implementation of a sequence to sequence neural network using an encoder-decoder
Keras implementation of a sequence to sequence model for time series prediction using an encoder-decoder architecture. I created this post to share a
195 Dec 17, 2022
Map single-cell transcriptomes to copy number evolutionary trees.
Map single-cell transcriptomes to copy number evolutionary trees. Check out the tutorial for more information. Installation $ pip install scatrex SCA
12 Jan 1, 2023
A Snakemake workflow for standardised sc/snRNAseq analysis
single_snake_sequencing - sc/snRNAseq Snakemake Workflow A Snakemake workflow for standardised sc/snRNAseq analysis. Every single cell analysis is sli
1 Nov 2, 2021
Biomarker identification for COVID-19 Severity in BALF cells Single-cell RNA-seq data
scBALF Covid-19 dataset Analysis Here is the Github page that has the codes for the bioinformatics pipeline described in the paper COVID-Datathon: Bio
2 May 21, 2022
Supervised Contrastive Learning for Downstream Optimized Sequence Representations
SupCL-Seq 📖 Supervised Contrastive Learning for Downstream Optimized Sequence representations (SupCS-Seq) accepted to be published in EMNLP 2021, ext
18 Oct 21, 2022
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis. You write a high level configuration file specifying your in
915 Dec 29, 2022
An interactive explorer for single-cell transcriptomics data
an interactive explorer for single-cell transcriptomics data cellxgene (pronounced "cell-by-gene") is an interactive data explorer for single-cell tra
424 Dec 15, 2022
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis. You write a high level configuration file specifying your in
917 Jan 3, 2023