Topics tagged mapping

Topic	Replies	Views	Activity
Ensembl gene annotation gtf for rat problem with RNA STAR usegalaxy.org support troubleshooting , mapping , reference-annotation , reference-genome , resources	2	19	February 26, 2025
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	3	44	January 22, 2025
Possible to map reads against multiple separate references at once? usegalaxy.org support mapping	2	10	January 15, 2025
Determining Primary, Intermediate, and Mature Mitochondrial Transcripts?? usegalaxy.org support workflow , mapping , transcriptomics , single-cell	1	4	December 9, 2024
IGV Download Problem usegalaxy.org support gtn-tutorial , mapping	3	26	December 5, 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	14	December 4, 2024
Galaxy & Kubernetes mapping	7	38	November 28, 2024
Map with minimap2, no secondary alignment mapping , tool-help , minimap2	1	37	November 26, 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	13	November 25, 2024
how to get the MadLandDB mentioned in this tutorial? gtn-tutorial , mapping , blast , makeblastdb	4	300	November 11, 2024
Interproscan format issues usegalaxy.eu support troubleshooting , mapping , tool-help	3	24	November 7, 2024
hisat2 and featurecounts usegalaxy.org support gtn-tutorial , workflow , galaxy-local , mapping , transcriptomics , featurecounts	23	2024	October 28, 2024
Cant get bowtie to work mapping	2	16	October 25, 2024
jobs running too slow usegalaxy.org support mapping , transcriptomics	2	35	October 25, 2024
HISAT2 output error mapping , tool-help , hisat2	3	85	October 21, 2024
Discard parts of sequence not mapped to reference usegalaxy.org support mapping , single-cell	2	19	October 18, 2024
Variant calling with VarScan on WGS data usegalaxy.org support workflow , mapping , tool-help , variant-analysis , varscan	5	59	October 12, 2024
NCBI BLAST+ blastx custom-genome , mapping , tool-help , ncbi_blastx_wrapper	1	21	October 10, 2024
Can users increase the number of threads used for jobs? usegalaxy.eu support mapping	1	29	October 10, 2024
Searching one large sequence for a smaller sequence usegalaxy.org support troubleshooting , mapping , blast , ncbi_blastn_wrapper	1	11	September 30, 2024
Question about Minimap2 and nanopore reads mapping , single-cell	1	42	September 17, 2024
Map with BWA-MEM problem - An error occurred with this dataset: bam format mapping , bwa-mem	3	92	September 17, 2024
Need Help with Mapping Genome Skimming Data and Generating Consensus Sequences in Galaxy usegalaxy.eu support mapping , tool-help	1	30	September 16, 2024
Optimizing STAR Mapping for Large-Scale Genome Annotation: Managing Memory Overflows in RNA-Seq Workflows workflow , reference-index , galaxy-local , mapping , transcriptomics , exceeds-memory-error	6	39	September 10, 2024
I am using HISAT2, but my reference genome Rickettsia rickettsii is missing in the dropdown list. custom-genome , mapping , custom-build	15	56	August 23, 2024
Please run Megablast as an option with BLASTN usegalaxy.eu support mapping , blast , tool-help , ncbi_blastn_wrapper , megablast_wrapper	8	87	August 18, 2024
DeepVariant low quality sorting mapping , tool-help , variant-analysis	1	54	July 31, 2024
The accuracy of re-blasting known sequences of human gut microbes is very low usegalaxy.org support gtn-tutorial , mapping	1	5	July 29, 2024
DIAMOND --all option not working usegalaxy.eu support mapping	3	117	July 22, 2024
RNA alignment not detecting indels mapping , transcriptomics	5	95	June 17, 2024