Topics tagged custom-genome

Topic	Replies	Views	Activity
UCSC Reference Genome and GTF Fatal Error no valid exons in the GTF file usegalaxy.eu support custom-genome , mapping , fastq-format-error , ucsc , rna-seq , featurecounts , fastq-format , rna_star	1	7	January 8, 2025
RNA STAR options custom-genome	1	11	December 28, 2024
Addition Of Reference Genome custom-genome	2	331	December 23, 2024
RNAstar Select Reference Genome - Species Not Available - contact the Galaxy team (--genomeDir) usegalaxy.eu support custom-genome , mapping , reference-annotation , reference-genome , custom-build , reference-transcriptome	1	11	December 4, 2024
Bowtie2 reference genome of Goat (Capra Hircus) usegalaxy.org support reference-index , custom-genome , mapping , reference-annotation , reference-genome , custom-build , tool-help , reference-transcriptome , bowtie2	1	11	November 25, 2024
NCBI BLAST+ blastx custom-genome , mapping , tool-help , ncbi_blastx_wrapper	1	19	October 10, 2024
reference genome for STARsolo usegalaxy.org support reference-index , custom-genome , transcriptomics , tool-help , rna_starsolo	3	32	December 4, 2024
Inquiry about lettuce genome Resources reference-index , custom-genome , reference-annotation , reference-genome , custom-build , resources	2	32	October 7, 2024
I am using HISAT2, but my reference genome Rickettsia rickettsii is missing in the dropdown list. custom-genome , mapping , custom-build	15	48	August 23, 2024
SICER is not available for the genome. reference-index , custom-genome , reference-genome , custom-build , tool-help , peakcalling_sicer	1	12	August 13, 2024
Bowtie2 brucella reference usegalaxy.eu support custom-genome , custom-build , tool-help	1	10	August 13, 2024
FreeBayes variant calling and Snpeff variant annotation Resources freebayes , custom-genome , custom-build , resources , tool-help , variant-analysis , snpeff , snpeff_build_gb	19	392	September 17, 2024
Adding genome reference? usegalaxy.org support reference-index , custom-genome , reference-annotation , reference-genome	2	211	April 23, 2024
How database assignments are used to access a fasta index: custom genomes, custom builds, server indexes Resources fasta-manipulation , database , reference-index , custom-genome , galaxy-local , troubleshooting , custom-build , resources	2	119	September 17, 2024
HISAT2 crash/failure usegalaxy.org support custom-genome , troubleshooting , mapping , exceeds-memory-error	7	1369	March 20, 2024
Problems Running MirDeep2 custom-genome , tool-help , rbc_mirdeep2	3	267	March 4, 2024
Reference genome options server-admin , reference-index , custom-genome	1	208	February 14, 2024
Add a new reference genome for RNAstar usegalaxy.org support custom-genome , transcriptomics	1	315	February 1, 2024
Custom reference genome troubleshooting reference-index , custom-genome	1	144	January 30, 2024
Reference genomes at public Galaxy servers: GRCh38/hg38 example Resources reference-index , custom-genome , reference-genome , resources	1	673	January 29, 2024
Custom genome + custom build: How to use a genome that is not natively indexed at the server you are working at usegalaxy.eu support fasta-manipulation , custom-genome , reference-genome , custom-build , resources	5	678	January 30, 2024
Reference Genome usegalaxy.org support custom-genome , reference-genome , custom-build	7	471	January 29, 2024
HiSat reference genomce seq.fasta GRCh38 does not work and HiSat2 does not accept other ref.seq.fasta usegalaxy.org support custom-genome , mapping	1	456	December 21, 2023
Mapping Leishmania transcript using RNA STAR custom-genome , reference-annotation , reference-genome , third-party-identities	1	240	December 12, 2023
paired-end histogram failure usegalaxy.org support custom-genome , dropbox	3	272	December 12, 2023
bedgraph-to-bigwig error usegalaxy.eu support custom-genome , macs2 , chrominfo , custom-build	3	390	November 14, 2023
Would it be possible for galaxy to include Camelus dromedarius reference genome in built in index ? reference-index , custom-genome , reference-genome , custom-build	4	363	August 16, 2023
Can not launche Extract Genomic DNA usegalaxy.eu support custom-genome	4	296	December 21, 2023
RNA star with reference genome from history error usegalaxy.eu support custom-genome , transcriptomics , reference-annotation , reference-genome , custom-build , deseq2 , rna_star	1	306	August 7, 2023
CHM13 T2T genome not found in options for some tools usegalaxy.org support database , custom-genome , macs2 , mapping , custom-build	10	910	July 20, 2023