aed-distribution-plot

plot the cumulative AED distribution controlling the quality of annotation for the final gene predictions

ampril-genomes

scripts for the project of seven thaliana genomes assembly

analysis_on_the_story_of_a_stone

Analysis on the novel "the Story of a Stone"

biocoding_tutorial

A tutorial in Python where all the examples teach students about biology. Written for high school students with no previous experience.

bioinf-python

Python for Bioinformatics

biopython-cn

Biopython Tutorial Chinese Translation

cdna_cupcake

Miscellaneous collection of Python and R scripts for processing Iso-Seq data

cheatsheets

RStudio Cheat Sheets

clust

Automatic and optimised consensus clustering of one or more heterogeneous datasets

deeplearning-500-questions

深度学习500问，以问答形式对常用的概率知识、线性代数、机器学习、深度学习、计算机视觉等热点问题进行阐述，以帮助自己及有需要的读者。 全书分为17个章节，20多万字。由于水平有限，书中不妥之处恳请广大读者批评指正。 未完待续............ 如有意合作，联系[email protected] 版权所有，违权必究 Tan 2018.06

dss

little revise newest DSS version description for devtools install

dupgen_finder

A pipeline used to identify different modes of duplicated gene pairs

edta

Extensive de-novo TE Annotator

extract-intron-from-gff3

This script will extract the intron feature gff3 and sequence from gene_exon gff3 and fasta file.

gce

GCE (genomic charactor estimator) is a bayes model based method to estimate the genome size, genomic repeat content and the heterozygsis rate of the sequencing sample. The estimated result can be used to design the sequencing strategy.

genome-data-of-gossypium-hirsutum

genome-data-of-hanfu-apple

FASTA files of chromosomes and genes, gff files for gene models.

hickit

TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C

isoseq

IsoSeq3 - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads

jcvi

Python utility libraries on genome assembly, annotation and comparative genomics

lqhhhhh

ltr_retriever

LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.

maize_nc358

The repository for codes developed to generated the Maize NC358 assemblies and analyses.

microbial-interkingdom-suppl

Scripts and tables for Duran & Thiergart et al. 2018 (unpublished)

msfs_teo

mSFS using a teosinte natural population

oneliners

Useful bash one-liners for bioinformatics.

paml-yn00-run-pipeline

A personal pipeline to calculate Ka,Ks and Ka/Ks using PAML-yn00 with YN method

pandas

Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more

pygenometracks

python module to plot beautiful and highly customizable genome browser tracks

pythonngstools

Scripts for NGS processing