silvidc
I am an immunologist slowly diving in the world of bioinformatics. Using R, Python and Unix for RNA-seq, sc-RNA-seq, PacBio Long Read-RNA-seq, CITE-seq analysis
Artizan biosciences New Haven, CT
Pinned Repositories
alphafold
Open source code for AlphaFold.
ASpli
Analysis of alternative splicing using RNAseq
awesome-single-cell
List of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
free-programming-books
:books: Freely available programming books
intervene-shiny
An interactive Shiny App for UpSet plots, Venn diagrams and Pairwise heatmaps
ipsa-full
Integrative Pipeline for Splicing Analyses (IPSA)
ISOP
Isoform-level expression patterns in single-cell RNA-sequencing data
jax-jupyter
Jackson Labs hands-on workshop material for using Jupyter Notebooks on CloudOS
matplotlib-venn
Area-weighted venn-diagrams for Python/matplotlib
rna-seq-pipeline
silvidc's Repositories
silvidc/rna-seq-pipeline
silvidc/alphafold
Open source code for AlphaFold.
silvidc/ASpli
Analysis of alternative splicing using RNAseq
silvidc/awesome-single-cell
List of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
silvidc/free-programming-books
:books: Freely available programming books
silvidc/intervene-shiny
An interactive Shiny App for UpSet plots, Venn diagrams and Pairwise heatmaps
silvidc/ipsa-full
Integrative Pipeline for Splicing Analyses (IPSA)
silvidc/ISOP
Isoform-level expression patterns in single-cell RNA-sequencing data
silvidc/jax-jupyter
Jackson Labs hands-on workshop material for using Jupyter Notebooks on CloudOS
silvidc/matplotlib-venn
Area-weighted venn-diagrams for Python/matplotlib
silvidc/pancanatlas_code_public
Public repository containing research code for the TCGA PanCanAtlas Splicing project
silvidc/python-ecology-lesson
Data Analysis and Visualization in Python for Ecologists
silvidc/rageseq
RAGE-seq scripts
silvidc/sc-school-2021
silvidc/single_cell__transcritpomics_roadmap
silvidc/spladder
Tool for the detection and quantification of alternative splicing events from RNA-Seq data.
silvidc/SQANTI2
Private repo for Liz's modified SQANTI
silvidc/UpSetR
An R implementation of the UpSet set visualization technique published by Lex, Gehlenborg, et al..
silvidc/VALERIE
silvidc/Vennerable
Vennerable provides Venn diagrams in R. It displays Venn and Euler diagrams for up to 9 different sets and using a variety of geometries. It allows the display of area-weighted Venn diagrams and allows fine graphical control over the result.
silvidc/Yale-R-course