Download hg19 from NCBI FTP
I have scanned through ftp://ftp.ncbi.nlm.nih.gov/genomes/Homo_sapiens/ but I cannot find the reference sequence hg19?
ncbi
ftp
hg19
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
where do I find transcript_biotype
written by newbie_r •I am trying to fetch gene_biotype and transcript_biotype from the NCBI ftp site (link: https://ftp.ncbi.nlm.nih.gov/genomes/refseq/vertebrate_mammalian/Homo_sapiens/latest_assembly_versions/GCF_000001405.39_GRCh38.p13/) I was able to get gene_biotype from GCF_000001405.39_GRCh38.p13_genomic.gff.gz from the …
-
GRCh37.p13 download at NCBI FTP?
written by MarvinI'm lost at the NCBI FTP server. Which file contains all chromosomes of GRCh37.p13 in one fasta? The program that I want to use takes …
-
Builiding reference for annovar based on build37.1?
written by SharonHi Everyone Have anyone used `annotation_variation.pl` by Annovar to build a reference from NCBI build 37.1. I need this version exactly to annotate some old …
-
Annotated files that contain the sequence of genes and CDSs?
written by unksciI could download files annotated with the sequence of genes through NCBI's web-API, but could not find them on their ftp server. Similarly assemblies in …
-
Blastp in matlab
written by niloofaraghaie •Hello As novice in bioinformatics,I have a problem with blast algorithm in order to implement in matlab. I have 32 genomes and I want to …
-
How to choose NCBI viral database?
written by TaoHi Guys, I have noticed there are two folders on NCBI ftp server which contain viral genomes: ftp://ftp.ncbi.nlm.nih.gov/genomes/Viruses/ ftp://ftp.ncbi.nlm.nih.gov/genomes/refseq/viral/ I don’t understand why NCBI put …
-
Is there any differences between Human Genome downloaded from UCSC website and the on from Ensembl
written by Y TbI am trying to use tophat to map RNA-seq data with human genome, I found that the human genome and different versions from annotation files …
-
How To Retain One Cds Out Of Multiple Isoforms In Human Genomic Data
written by qiyunzhu<p>Dear all,</p> <p>Wish you all have a great weekend. I am trying to generate a non-redundant collection of human protein-coding genes from the human reference …
-
Cuffmerge Is Looking For Contig Fasta Files That I Do Not Have!
written by jobinv<p>I downloaded the full Homo_sapiens_Ensembl_GRCh37.tar.gz file from <a href='http://cufflinks.cbcb.umd.edu/igenomes.html'>iGenomes</a> (huge file, 17 GB, but contains everything I've needed otherwise for my tuxedo suite, from genomes …
-
Applying Patches To Grch Assembly
written by Nikolay VyahhiThere exists [PATCHES in H. sapiens GRCh37 assembly][1]. Some of them are "fix patches": > FIX patch: A patch that corrects sequence or reduces an …
Hello Marvin!
Questions similar to yours can already be found at:
We have closed your question to allow us to keep similar content in the same thread.
If you disagree with this please tell us why in a reply below. We'll be happy to talk about it.
Cheers!
Thank you but that thread doesn't answer the question? They refer to Ensembl instead. I want to know where I can find the right file on the NCBI FTP?
Where are you looking? - I show how to download the NCBI (RefSeq)'s version of hg19 here, in the thread to which ATpoint linked: A: GRCh37.p13 download at NCBI FTP?
No, you posted a link instead of explaining how/where to navigate inside the FTP browser. I want to educate myself and not ask someone for a link everytime. "Where are you looking" -> I'm looking at the link that I've posted.
I have now added a link to the FTP site in my other answer.
Oh thank you, now I know why I couldn't find it. I wouldn't have guessed that it is wrong to navigate to "genomes" from the top level. EDIT I just realized that the other thread was mine, lol. I've accepted your answer on the other thread.