functional Posts

functional annotation alignment reference genomes written 3.9 years ago by ankitanigam1211 • 0 • updated 3.9 years ago by Jennifer Hillman Jackson ♦ 25k

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A: RNAseq: RNA STAR ---Mapping to a viral genome by Jennifer Hillman Jackson ♦ 25k
Hello, 1. RNA STAR expects the input fastq data to be spliced (RNA). BWA expects the input to be...
A: Corrdinates from ORFs on transcripts by Jennifer Hillman Jackson ♦ 25k
Hello, These ORF fasta sequences can be mapped back to the reference genome to obtain the coordi...
A: NGS Assembly tutorial sample data question by Jennifer Hillman Jackson ♦ 25k
Hello, Yes, map the data then use a tool such as **NGS: DeepTools > bamPEFragmentSize Estimat...
A: Why shouldn't you ever compare TPM values across samples? by Jennifer Hillman Jackson ♦ 25k
Hello, Using count data directly is more scientifically accurate. Comparing statistics based on ...
A: Error - Heatmap generation / visualization from RNA-seq data using DESeq2 workfl by Jennifer Hillman Jackson ♦ 25k
Hello, Charts have been updated and moved to a new section of the GUI. Try using the Heatmap fun...
A: Uploaded files still being imported ito the history after 48h by f.laforets • 10
Hi Martin, Thanks for your help. I will import it again, then! Best wishes, Flo
A: Uploaded files still being imported ito the history after 48h by Martin Čech ♦♦ 4.8k
Hi Flo, we were upgrading usegalaxy.org to a new release 2 days ago and one of the handlers ended...
C: Error in docker when using smtp_server by gb • 30
Thanks for the response, I will try to run galaxy outside docker to check if it is a docker or ga...
C: mpileup warning and problem with bcftools call by Jennifer Hillman Jackson ♦ 25k
In the history named "Sur38" at Galaxy Main https://usegalaxy.org: - the bcftools call job (dat...
C: mpileup warning and problem with bcftools call by aymeric.goyer • 0
Hello, Bcftools call was run on the only output file produced by mpileup, so it is not clear to ...
C: Slurm Drmaa configuration for Galaxy by Jennifer Hillman Jackson ♦ 25k
Are you running the latest release 18.05? https://docs.galaxyproject.org/en/master/releases/18.05...
A: Error in docker when using smtp_server by Jennifer Hillman Jackson ♦ 25k
Hello, The error is likely a problem with the uWSGI install/version/setup. Double check that yo...

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