Pinned Repositories
2014
Official content for the Fall 2014 Harvard CS109 Data Science course
3dbarplot
A 3D barplot script for R. Can encode variables using both height and depth of columns.
adv-r
Advanced R programming: a book
affyLumCNA
Copy Number Alterations: Preprocessing, integration, and analysis of Affymetrix and Illumina data
Al3n70rn
AllenBrainPy
Python package to analyze Allen Humap Brain genes expression
ALTRE
ALTered Regulatory Elements
annotables
Provides tables for annotating Ensembl Gene IDs.
annotatr
Annotation of Genomic Regions to Genomic Annotations
arkas
This is the kallisto package
Al3n70rn's Repositories
Al3n70rn/Al3n70rn
Al3n70rn/antigen.garnish
Ensemble neoepitope prediction from DNA variants in R.
Al3n70rn/athena
Computational Framework to Analyse Spatial Heterogeneity in Visum, IMC or MIBI data sets
Al3n70rn/bios201
Al3n70rn/Clinker
Gene Fusion Visualiser
Al3n70rn/cocoanlab.github.io
Build a beautiful and simple website in literally minutes. Demo at http://deanattali.com/beautiful-jekyll
Al3n70rn/delly
DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
Al3n70rn/epicseg
Chromatin segmentation in R
Al3n70rn/GeneFuse
Gene fusion detection and visualization
Al3n70rn/guacamole
Spark-based variant calling, with experimental support for multi-sample somatic calling (including RNA) and local assembly
Al3n70rn/iAnnotateSV
iAnnotateSV is a Python library and command-line software toolkit to annotate and visualize structural variants detected from Next Generation DNA sequencing data.
Al3n70rn/kourami
Kourami: Graph-guided assembly for HLA alleles
Al3n70rn/liger
Lightweight Iterative Gene set Enrichment in R
Al3n70rn/lumpy-sv
lumpy: a general probabilistic framework for structural variant discovery
Al3n70rn/manta
Structural variant and indel caller for mapped sequencing data
Al3n70rn/MoNuSAC-ISBI-2020
[TMI'2021][ISBI MoNuSAC'2020] 11th place solution to Multi-organ nuclei segmentation and classification challenge.
Al3n70rn/MOSClip
Multi Omics Survival Clip
Al3n70rn/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
Al3n70rn/pathml
Tools for computational pathology
Al3n70rn/PathomicFusion
Fusing Histology and Genomics via Deep Learning - IEEE TMI
Al3n70rn/squid
Al3n70rn/StructuralVariantAnnotation
R package designed to simplify structural variant analysis
Al3n70rn/SUPPA
SUPPA: Fast quantification of differential splicing
Al3n70rn/SUPPA_supplementary_data
Supplementary data
Al3n70rn/survminer
Survival Analysis and Visualization
Al3n70rn/svaba
Structural variation and indel detection by local assembly
Al3n70rn/TensorFlow-Advanced-Segmentation-Models
A Python Library for High-Level Semantic Segmentation Models based on TensorFlow and Keras with pretrained backbones.
Al3n70rn/TFCE_mediation
Fast regression and mediation analysis of vertex or voxel MRI data with TFCE
Al3n70rn/waffle
:maple_leaf: Make waffle (square pie) charts in R
Al3n70rn/wes-filters
Filters for false-positive mutation calls in whole-exome sequencing