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gff

Here are 43 public repositories matching this topic...

NBISweden / AGAT

Another Gtf/Gff Analysis Toolkit

toolkit perl-scripts gtf gff agat standardisation gff-format

Updated Oct 28, 2022
Perl

chrovis / cljam

A DNA Sequence Alignment/Map (SAM) library for Clojure

clojure bioinformatics genomics sam vcf fasta bigwig bed bam fastq bcf wig gff 2bit

Updated Nov 16, 2022
Clojure

wurmlab / flo

Same species annotation lift over pipeline.

bioinformatics liftover gff gene-prediction

Updated May 29, 2021
Ruby

NAL-i5K / GFF3toolkit

Python programs for processing GFF3 files

bioinformatics gff3 gff gff3-format

Updated Dec 9, 2021
Python

pyGenomeViz

moshi4 / pyGenomeViz

A genome visualization python package for comparative genomics

visualization python bioinformatics genomics gff3 genbank matplotlib microbial-genomics microbiology comparative-genomics synteny genomics-visualization gff

Updated Oct 30, 2022
Python

telatin / bamtocov

🏔 coverage extraction from BAM/CRAM files, supporting targets 📊

coverage bioinformatics ngs alignment bed bam gff

Updated Sep 29, 2022
Nim

wrf / genomeGTFtools

convert various features into a GFF-like file for use in genome browsers

visualization genomics genome-annotation jbrowse gff genome-browsers

Updated Nov 14, 2022
Python

ginkgobioworks / edge

Efficiently keep track of changes to genomes

primer bioinformatics genome edge genome-annotation prefix-tree ncbi-blast gff

Updated Oct 12, 2022
Python

baoxingsong / GEAN

This toolkit deals with GEnomic sequence and genome structure ANnotation files between inbreeding lines and species.

annotations liftover transformation gff pseudo-genome-sequence variant-records gene-structure

Updated Jun 19, 2021
C++

sbslee / fuc

Sponsor

Frequently used commands in bioinformatics

visualization api cli bioinformatics sam vcf fasta gtf bed maf bam fastq cram gff

Updated Aug 23, 2022
Python

NCBI-Hackathons / Master_gff3_parser

Convert sequence IDs between ucsc/refseq/genbank

gff3 gff gff3-files seqids

Updated Aug 28, 2018
Python

miRTop / mirtop

command lines tool to annotate miRNAs with a standard mirna/isomir naming

formatter mirna gff isomirs smallrna-seq

Updated Apr 22, 2022
Python

bpucker / RNA-Seq_analysis

scripts for RNA-Seq analysis

python annotations gene-expression tpm rna-seq-analysis featurecounts gff count-table reference-genes fpkm

Updated Feb 20, 2022
Python

biomadeira / BioDownloader

📦 A Command Line Tool for downloading protein structures, sequences and MSAs

cli bioinformatics pdb fasta cath mmcif gff pfam sifts

Updated Nov 21, 2017
Python

zyxue / gtf2csv

Convert genome annotation GTF file into plain CSV format

csv annotation genomics gtf annotation-processing gff

Updated Oct 3, 2018
Jupyter Notebook

NickJD / StORF-Reporter

Python3 package to extract Unannotated Regions from prokaryotic genomes report putative coding and pseudogenised genes delimited by stop codons or StORFs (Stop - Open Reading Frames)

fasta orfs python3-script genomes gff python3-scripts

Updated Oct 28, 2022
Python

chasewnelson / EBT

Evolutionary Bioinformatics Toolkit (EBT)

perl vcf fasta gtf sequence dna-sequences sequence-alignment fasta-sequences gff vcf-files

Updated Jul 14, 2020
Perl

raphaelleman / SpliceLauncher

RNAseq pipeline for alternative splicing junctions

rnaseq star bedtools samtools gff genome-fasta alternative-junctions

Updated Jul 1, 2022
R

acsamson / ImageFusion-Algorithm

ImageFusion algorithm, SSIM and PSNR evaluation（常见图像融合算法以及SSIM和PSNR评价

cnn dwt ssim dct psnr gff imagefusion

Updated Aug 30, 2021
MATLAB

tdseher / addtag-project

CRISPR/Cas-directed HDR genome editing suite: finds+scores gRNA targets, generates donor DNAs, & produces optimal cPCR primer designs.

genome dna fasta crispr-analysis crispr pcr crispr-target crispr-cas9 cas9 gff cpf1 sgrna

Updated Oct 18, 2021
Python

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