anandksrao Goto Github PK

mergesvcallers

heuristics to merge structural variant calls in VCF format.

mfuzz_rnaseq

A R script to perform clustering of gene expression time-series RNA-seq data with Mfuzz.

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

mite-tracker

MITE Tracker: An accurate approach to identify miniature inverted-repeat transposable elements in large genomes

mouse_embryonic_mirnas

The miRNA-mRNA analysis during mouse embryonic development

mytai

Evolutionary Transcriptomics with R

neural-networks-and-deep-learning

Code samples for my book "Neural Networks and Deep Learning"

ngram

Fast n-Gram Tokenization

ngsld-tutorial

Tutorial for learning ngsLD functionalities

orphan-prediction

methods for orphan gene prediction paper optimization

orthologr

Comparative Genomics with R

orthomcl_tools

A couple of tools I find indispensable for post orthomcl down-stream analysis.

osg-kinc

p-sams

The Plant Small RNA Maker Suite

pan-nlrome

The GitHub repository for the A. thaliana pan-NLR'ome project.

pantools

PanTools

pantools_v1.0

All the results presented in the PanTools paper (doi: 10.1093/bioinformatics/btw455 ) were produced by this version.

parsing-repeatmasker-outputs

Few scripts facilitating the extraction of info from Repeat Masker .out files

pasa_lite

Stepping away from MySQL

pasapipeline

PASA software

pbs-gem

Workflow for creating a gene expression matrix (GEM) using resources available on the Palmetto Cluster at Clemson University

pdbtools

A set of tools for manipulating and doing calculations on wwPDB macromolecule structure files

phd

phyltr

Phylogenetic Analysis of Long Terminal Repeat Retrotransposons

pindel

Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants at single-based resolution from next-gen sequence data. It uses a pattern growth approach to identify the breakpoints of these variants from paired-end short reads.

plant_rgenes

pop_gen_cnn

popgen_tutorial

poplddecay

PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files

postdoc

postdoc scripts