JinfengChen

Pinned Repositories

allpath_ec
Language:Perl2 3 31
biocode
Bioinformatics code libraries and scripts
Language:Python5 3 06
Bioinformatics_Blogs
Blog bioinformatics
Language:HTML2 2 00
Bionano_hybrid_na12878
Language:Perl2 2 01
Circos
Language:Perl6 4 04
GenomeAlign
Language:Perl8 4 08
Intron
Language:Python2 2 01
RelocaTE2
RelocaTE2
Language:Python14 4 197
Scripts
Language:C73 12 887
StructureVariation
Language:Perl7 2 05

JinfengChen's Repositories

JinfengChen/biocode
Bioinformatics code libraries and scripts
Language:Python5 3 06
JinfengChen/Transposition_new
Language:Python2 2 02
JinfengChen/10x
Language:Python1 2 01
JinfengChen/bionano
Language:Shell1 2 00
JinfengChen/maffilter
The MafFilter genome alignment processor
Language:C++1 2 0
JinfengChen/mafTools
Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.
Language:C11
JinfengChen/maize_v4_TE_annotation
scripts and intermediate files used to annotate TEs in Jiao et al.
Language:Shell1 2 0
JinfengChen/pacbio_variant_caller
SMRT-SV: Structural variant and indel caller for PacBio reads
Language:Python1 2 0
JinfengChen/pop_analysis
Language:Python1 2 01
JinfengChen/PythonNGSTools
Scripts for NGS processing
Language:Python1 2 01
JinfengChen/racon
Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr.214270.116
Language:C++1 2 0
JinfengChen/Rice_pop
Language:Shell1 2 0
JinfengChen/RILs_Preparation
Language:Shell1
JinfengChen/arcs
Scaffold genome sequence assemblies using 10x Genomics data
Language:C++2 0
JinfengChen/Assemblytics
Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference genome.
Language:Python2 01
JinfengChen/CNVRepeat
Language:Python2 01
JinfengChen/CNVRepeat_eva
Language:Shell
JinfengChen/deeplearning-biology
A list of deep learning implementations in biology
JinfengChen/gdc
Short scripts for converting genetic data between formats.
Language:Python2 0
JinfengChen/HipSTR
Genotype and phase short tandem repeats using Illumina whole-genome sequencing data
Language:C2 0
JinfengChen/HomolContigsByAnnotation
python script to identify genes that are present on multiple contigs
Language:Python1
JinfengChen/jekyll
:globe_with_meridians: Jekyll is a blog-aware, static site generator in Ruby
Language:Ruby2 0
JinfengChen/mlift
A mummer based genomic coordinate liftover tool
Language:C++2 0
JinfengChen/NGS_data_processing
Tool set for processing fasta/fastq/table formated data. Usually they are perl scripts.
Language:Perl3 01
JinfengChen/Pacbio
Language:Perl2 0
JinfengChen/PacBio-utilities
Collection of utilities for working with PacBio-based assemblies
Language:Perl
JinfengChen/QTL_pipe
Language:Shell2 01
JinfengChen/SURVIVOR
Toolset for SV simulation, comparison and filtering
Language:C++2 0
JinfengChen/svmu
A program to call variants from genome alignment
Language:C++
JinfengChen/xpclr
Code to compute the XP-CLR statistic to infer natural selection
Language:Python2 0