hg19 File Problems

Hi, Is anyone having problems with this file?

wget ftp://igenome:G3nom3s4u@ussd-ftp.illumina.com/Homo_sapiens/Ensembl/GRCh37/Homo_sapiens_Ensembl_GRCh37.tar.gz

Some of the files are missing? The gtf file is there, but the

1) Reference genome (combined): Homo_sapiens/Ensembl/GRCh37/Sequence/WholeGenomeFasta/genome.fa

2) Reference genome (individual): Homo_sapiens/Ensembl/GRCh37/Sequence/Chromosomes/*.fa

files, aren't there?

Thanks,
Tessa

rna-seq

• 1,874 views • link

updated 3.5 years ago by Ram

• written 11.3 years ago by tessahu888 •

0 answers

No answers yet.

More posts like this

GRCh37.p13 download at NCBI FTP?
written 7.9 years ago by Marvin

I'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 …
Warnings while generating STAR indices
written 8.3 years ago by skhan •

I'd like to align 2x75b TruSeq RNA Seq data collected on an Illumina instrument to the rat reference genome using STAR, for downstream differential expression …
Builiding reference for annovar based on build37.1?
written 8.3 years ago by Sharon

Hi 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 …
Trouble using TopHat (bowtie index genome.*.bt2l)
written 8.8 years ago by manuelmendoza •

Hello! I'm just starting to use tophat and I have a little problem which I am not able to solve. I wanna align several human …
Align human reference genome and ancestral genome
written 9.8 years ago by ostrokach

I would like to get a list of amino acid mutations that occured in the course of evolution from early primates to current humans. I …
Could not find fasta record: CuffCompare & Cuffmerge
written 10.2 years ago by EpiExplorer

Hi , I am using the genes.gtf and genome.fa files from iGenomes for Homo sapiens Ensemble GRCh37, for cuffcompare and cuffmerge. But I get the …
Converting TCGA MAF files to VCF using reference assembly GRCh37 lite
written 10.5 years ago by arsala521 •

Hello I am trying to convert TCGA MAF file to VCF using maf2vcf.pl The MAF file with build GRCh37-lite was not converted to VCF when …
Error Runnin miRDeep2
written 11.1 years ago by pm2012

Hi All I am trying to run miRDeep2 for the differential expression of miRNA in my dataset. I ran the mapper.pl without much hassle. However, …
Is there any differences between Human Genome downloaded from UCSC website and the on from Ensembl
written 11.4 years ago by Y Tb

I 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 …
Cuffmerge Is Looking For Contig Fasta Files That I Do Not Have!
written 13.2 years ago 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 …