Topics tagged custom-genome

Topic	Replies	Views	Activity
Reference genome not in database offered by galaxy - Solution: Use a custom genome usegalaxy.org support fasta , custom-genome , ftp-upload , custom-build	7	107	December 7, 2021
Any way to align a single cDNA sequence against the raw nanopore data? usegalaxy.eu support workflow , custom-genome , data-manager	2	83	October 25, 2021
Gaps in the genome assembly usegalaxy.eu support custom-genome , data-manager	0	78	August 31, 2021
Reference geneome usegalaxy.org support fasta , custom-genome , custom-build	1	133	August 10, 2021
HISAT2 alignment results in very low in number of mapped reads usegalaxy.org support custom-genome , mapping , qa-qc , hisat2 , reference-annotation	7	267	August 7, 2021
Do I need to convert genomic.fna.gz file to fasta for custom genomes, if so, how? usegalaxy.org support custom-genome	4	160	June 29, 2021
MethylDackel running time too long usegalaxy.eu support custom-genome , reference-annotation , gtf , queued-gray-datasets , gff3	18	232	June 15, 2021
Extract a subsequence from the whole genome assembly? usegalaxy.eu support custom-genome , data-manager	11	100	June 11, 2021
Mapping to a uploaded (large) reference genome dataset -- Platform Choices usegalaxy.org support custom-genome , cloudman , gvl , reference-genome , custom-build	14	321	June 9, 2021
Very long running time for RepeatMasker? usegalaxy.eu support workflow , custom-genome , custom-build , genome-annotation	9	144	May 21, 2021
Download genome into Galaxy usegalaxy.org support custom-genome , data-manager , reference-annotation , reference-genome , datacashe	9	1317	May 12, 2021
Failed BLAST+ jobs: Tips and formatting help for successful index creation with makeblastdb usegalaxy.org support fasta-manipulation , fasta , custom-genome , blast , makeblastdb	4	206	April 21, 2021
Error in Naive Variant Caller (NVC) in usegalaxy.org -- Resolved usegalaxy.org support variant , database , custom-genome , usegalaxy , custom-build	7	209	February 15, 2021
Custom reference genome annotation usegalaxy.org support custom-genome , reference-annotation , gtf , genome-annotation	4	161	January 25, 2021
Extract Genomic DNA Invalid Lines Error usegalaxy.org support bed , custom-genome , input , tabular , custom-build	6	273	January 22, 2021
How to solve the problem related to unmatched chromosome identifiers? custom-genome , qa-qc , featurecounts , reference-annotation , reference-genome	1	132	January 4, 2021
Identification of Cre-recombinase in ScRNAseq data custom-genome , mapping , hisat2 , rna-star	3	203	January 2, 2021
Please add the Xenopus laevis reference genome to Galaxy -- Indexing already planned, use a Custom Genome/Build for now usegalaxy.org support custom-genome , hisat2 , reference-genome , custom-build	6	318	December 18, 2020
scRNAseq Galaxy workflow custom-genome , scrna-seq , reference-annotation , gtf , reference-genome	13	851	December 11, 2020
Uploading A. thaliana reference genome to RNA STAR usegalaxy.org support custom-genome , input , reference-annotation , reference-genome , custom-build	1	157	November 30, 2020
Alternative to DM tools for inbuilt reference sequence usegalaxy.eu support database , custom-genome , data-manager , custom-build	3	288	November 30, 2020
RNA Star alignment to opposum monDom5 genome usegalaxy.org support custom-genome , reference-annotation , reference-genome , custom-build	1	166	November 10, 2020
Baboon reference genome admin , custom-genome , data-manager , reference-annotation , reference-genome	2	145	October 30, 2020
Request for including 2x fungal genomes in the GALAXY reference genome list usegalaxy.eu support custom-genome , reference-genome , custom-build	2	215	October 29, 2020
Another STAR error -- Resolved usegalaxy.org support custom-genome , reference-annotation , gtf , rna-star , custom-build	8	702	October 2, 2020
Mitochondrial genome usegalaxy.eu support admin , custom-genome , custom-build	4	288	September 20, 2020
Extracting sequences from bed file using tools extract Genomic DNA tool and bed to Fasta tool usegalaxy.org support fasta , metadata , custom-genome , bedtools , custom-build	3	727	June 30, 2020
HISAT2 and job stages, resources, PLAZA genomes, avoiding deprecated tools usegalaxy.org support custom-genome , tool-deprecated , hisat2 , custom-build , plaza	1	186	May 19, 2020
MiRDeep2 identification of novel and known miRNAs usegalaxy.eu support custom-genome , genome , mirna	28	2169	May 19, 2020
RNA seq analysis: deprecated tools, updated tools, learning resources usegalaxy.org support tophat , cufflinks , hisat , index , custom-genome	2	1119	May 15, 2020