Results for "gff"
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Ancient whole genome duplication (WGD) detection tools !
...d with 32 chromosomes (2n = 4x8 = 32) Download the tutorial for CDS and GFF annotation files mkdir -p...//www.life.illinois.edu/ming/downloads/Spontaneum_genome/Sspon.v20190103.gff3.gzgunzip *.gz First conda...1172 days ago
Bookmarks
- ...gt; hg19 (GRCh37), Mouse mm9 (MGSCv37) <> mm10 (GRCm38)). It supports most commonly used file formats including SAM/BAM, Wiggle/BigWig, BED, GFF/GTF, VCF. CrossMap is design...
3025 days ago
- ...7), Mouse mm9 (MGSCv37) <> mm10 (GRCm38)). It supports most commonly used file formats including SAM/BAM, Wiggle/BigWig, BED, GFF/GTF, VCF. CrossMap is design...
2816 days ago
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BioRuby :Ruby packages for biologist
...igh descriptive power. Classes for Multiple alignment (Bio::Alignment), Gene Ontology(Bio::GO), PDB (Bio::PDB), FANTOM database(Bio::FANTOM), GFF (Bio::GFF) and KEGGOrthology (Bio::KEGG...3964 days ago
Awesome perl frameworks, libraries and software - PART 2
...t generator ikegami/perl-LWP-Protocol-AnyEvent-http - Event loop friendly HTTP and HTTPS backend for Perl's LWP ihh/gfftools - Perl scripts for working with the GFF format iamcal/perl-Flickr-AP...2511 days ago
Top-level pages
Next generation sequencing in R or bioconductor environment
...entation rtracklayer rtracklayer provides an interface for exporting annotation feature data to various genome browsers and file formats (such as GFF). See the Small RNA Profiling...3641 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...nloaded tracks from dbSNP Also accepts: FASTA, GFF/GTF/GVF, BED, Wiggle, Cosmic,.../binding; Input: multiple: SGR/TXT, BED, BED6, GFF; if using prealigned sequence...digree data); updated April 2015 Input: FASTA, GFF3, GVF Output: CDR (condenser...2925 days ago
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ArrayGen Next Generation Genome Browser Coming Soon !!!
...equencing data analysis. It is platform independent and much simpler to use. The main features are, it supports many standard file formats such as GFF, BED, GTF, FASTA, VCF, BAM an...3093 days ago
Bio-Scripts
Download the gff files from NCBI using bash script/command
...Create a Directory mkdir genome_gff cd genome_gff # Look for genome assembly.../all/.+/)(GCF_.+)|\1\2/\2_genomic.gff.gz|' > genomic_file_fungi.../all/.+/)(GCA_.+)|\1\2/\2_genomic.gff.gz|' > genomic_file_bacteria.../all/.+/)(GCF_.+)|\1\2/\2_genomic.gff.gz|' > genomic_file_protozoa...2539 days ago
Plot custom gene density with R
library(karyoploteR) pp2266 days ago
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Comment on "Sibelia: A comparative genomics tool"
...start > end. If you wish, you can obtain coordinates in GFF format. If you use the flag: -gff Then coordinates of synten...specifying flag: --allstages Files "blocks_coordsN.(txt|gff)" will contain their coordina...1301 days ago
- ... gffNameAttr [attribute_name = NUL...; GTF/GFF attribute to set the feature...
1537 days ago
