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li-mingzhi's Projects

bedbreaker icon bedbreaker

A format converter from BreakDancer/XHMM output to BED

convert2bed icon convert2bed

Convert common binary and text genomic formats to BED

fasta_utilities icon fasta_utilities

A collection of scripts developed to interact with fasta, fastq and sam/bam files.

gff2gtf icon gff2gtf

AWK script for conversion of GFF files to GTF.

gread icon gread

Fast reading and processing of genome annotation and read format files such as GTF, GFF, BED, BAM etc.

hmmer-db icon hmmer-db

A program for searching, extracting and storing protein sequences that match specific Hidden Markov Models created by HMMER.

orthomcl-pipeline icon orthomcl-pipeline

Automates running of OrthoMCL software from http://orthomcl.org/common/downloads/software/v2.0/

pca icon pca

Principle Component Analysis in Python

profillic-hmmer icon profillic-hmmer

Modified versions of HMMER 3 programs to implement interoperability with galosh profiles (as generated by profillic).

rsgcc icon rsgcc

:exclamation: This is a read-only mirror of the CRAN R package repository. rsgcc — Gini methodology-based correlation and clustering analysis of<U+000a>microarray and RNA-Seq gene expression data. Homepage: http://www.cmbb.arizona.edu/

smod icon smod

SequenceMotifDecomposer (SMoD) is a motif finder algorithm.

tarhunterl icon tarhunterl

Plant miRNA target and target mimics prediction tool

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