Skip to content

Files

Latest commit

SunPengChuanSunPengChuan
fusion positions database
Dec 13, 2024
4cb5d25 · Dec 13, 2024

History

History

code

Folders and files

NameName
Last commit message
Last commit date

parent directory

..
01.getgff.py
01.getgff.py
Aug 18, 2021
02.gff_lens.py
02.gff_lens.py
Jul 7, 2022
03.seq_newname.py
03.seq_newname.py
Nov 6, 2023
GCF_007210705.1_Tcal_SD_v2.1_cds_from_genomic.fna.gz
GCF_007210705.1_Tcal_SD_v2.1_cds_from_genomic.fna.gz
Jan 11, 2024
GCF_007210705.1_Tcal_SD_v2.1_genomic.gff.gz
GCF_007210705.1_Tcal_SD_v2.1_genomic.gff.gz
Jan 11, 2024
GCF_007210705.1_Tcal_SD_v2.1_protein.faa.gz
GCF_007210705.1_Tcal_SD_v2.1_protein.faa.gz
Jan 11, 2024
deal_gff.py
deal_gff.py
Oct 13, 2022
deal_gff_ncbi.py
deal_gff_ncbi.py
Dec 13, 2024
fox1s.cds.fa
fox1s.cds.fa
Oct 13, 2022
fox1s.gff
fox1s.gff
Oct 13, 2022
fox1s.lens
fox1s.lens
Oct 13, 2022
fox1s.pep.fa
fox1s.pep.fa
Oct 13, 2022
fusarium_oxysporum_Fol007.cds-transcripts.fa
fusarium_oxysporum_Fol007.cds-transcripts.fa
Oct 13, 2022
fusarium_oxysporum_Fol007.gff3
fusarium_oxysporum_Fol007.gff3
Oct 13, 2022
fusarium_oxysporum_Fol007.proteins.fa
fusarium_oxysporum_Fol007.proteins.fa
Oct 13, 2022
readme.md
readme.md
Jan 11, 2024
tig2s.cds.fa
tig2s.cds.fa
Jan 11, 2024
tig2s.gff
tig2s.gff
Jan 11, 2024
tig2s.lens
tig2s.lens
Jan 11, 2024
tig2s.pep.fa
tig2s.pep.fa
Jan 11, 2024

readme.md

Due to the mismatch of downloaded data (cds, pep, gff), I now provide two scripts that can quickly process them into the format required by WGDI. Please select the appropriate program according to the example format.

python deal_gff.py fusarium_oxysporum_Fol007.gff3 fusarium_oxysporum_Fol007.cds-transcripts.fa fusarium_oxysporum_Fol007.proteins.fa fox1s
python deal_gff_ncbi.py GCF_007210705.1_Tcal_SD_v2.1_genomic.gff GCF_007210705.1_Tcal_SD_v2.1_cds_from_genomic.fna GCF_007210705.1_Tcal_SD_v2.1_protein.faa tig2s