index genome using haploid genome.fa or diploid genome.fa?
0
0
Entering edit mode
5.1 years ago
yiren ▴ 10

hi,now,I have a question about index genome in RNAseq.My species is diploid,but my genome file fasta is diploid,how can I index my genome?Can I delete my genome to haploid for index?

RNA-Seq • 1.5k views
ADD COMMENT
1
Entering edit mode

Unless specifically done so, even diploid genomes are usually assembled in a haploid state. What species are we talking about here and do you have any insights in how it was assembled?

ADD REPLY
0
Entering edit mode

The species is candida albicans,like a yeast.I find the genome that is haploid state from NCBI.But in its web,they offer the diploid state genome.fa.

ADD REPLY
0
Entering edit mode

thank you very much h.mom.

ADD REPLY
0
Entering edit mode

which software are you using ? what is a "diploid genome fa" ?

ADD REPLY
0
Entering edit mode

diploid genome.fa file is that there are two chr1 such as chr1_A,chr1_B.But chr1_A,chr1_B are a pair of chromosome.

ADD REPLY

Login before adding your answer.

Traffic: 1228 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6