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anandksrao's Projects

get_homologues icon get_homologues

GET_HOMOLOGUES: a versatile software package for pan-genome analysis

ggtree icon ggtree

:christmas_tree:Visualization and annotation of phylogenetic trees

ginom icon ginom

GINOM is a statistical framework for assessing interval overlap of multiple genomic features.

gsalign icon gsalign

GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison

hmmerctter icon hmmerctter

HMMER Cut-off Threshold Tool (HMMERCTTER): Supervised Classification of Superfamily Protein Sequences with a reliable Cut-off Threshold

hugo icon hugo

The world’s fastest framework for building websites.

hyppo icon hyppo

Hybrid Prediction of Paralogs and Orthologs

inpactor icon inpactor

Inpactor: Integrated and Parallel Analyzer and Classifier of LTR Retrotransposons for Large Genomes

intansv icon intansv

Integrative analysis of structural variations.

ivdd.pl icon ivdd.pl

IvDd.pl is a Perl script to estimate insertional variations of LTR-retrotransposons from the DGV dataset.

labs icon labs

Rmd source files for the HarvardX series PH525x

ldcalculator icon ldcalculator

Shiny Interface for the calculation of Linkage Disequilibrium.

ldhat icon ldhat

Estimate recombination rates from population genetic data

ldsc icon ldsc

LD Score Regression (LDSC)

linkage-disequilibrium icon linkage-disequilibrium

A suite of Java tools to calculate linkage disequilibrium between variants and load the results into BigQuery and BigTable.

locatr icon locatr

LocaTR identification pipeline for annotating LTR retrotransposons in any assembled genome

long_vs_short icon long_vs_short

An exercise for the purpose of demonstrating short vs long read assembly.

ltr_finder icon ltr_finder

LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences.

ltr_retriever icon ltr_retriever

LTR_retriever accurately identifies and annotates LTR retrotransposons; LAI evaluates the continuity of genome assemblies.

ltrpred icon ltrpred

Functional de novo annotation of LTR retrotransposons

ltrsift icon ltrsift

semi-automatic classification and postprocessing of LTR retrotransposons

ltsd.pl icon ltsd.pl

LTSD.pl is a Perl script to estimate putative target site duplications (TSDs) of LTR-retrotransposons.

lumpy-sv icon lumpy-sv

lumpy: a general probabilistic framework for structural variant discovery

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