However in the last step I am met with the error message: mkref has failed: error building reference package Error while parsing GTF file /data/scratch/DMP/DUDMP/PAEDCANC/shamer/M62_singlecell/mkref/references/refdata-gex-GRCh38-2020-A/genes/genes.filtered.d2eGFP.gtf Invalid contig name ...
4 changes: 2 additions & 2 deletions 4 EEPROM-parsing-tool/EEPROM-parsing-tool.py Original file line numberDiff line numberDiff line change @@ -70,9 +70,9 @@ if error_bits[11] == "1": error_meaning.append("TEMP_HYSTERESIS") if error_bits[12] == "1": error_meaning.append("...
Nanopore reads were aligned to theMus musculusGenome (mm10) with minimap2 v2.17 in spliced alignment mode (command: “minimap2 -ax splice -uf -MD -sam-hit-only -junc-bed”). The splice junction bed file was generated from the Gencode vM18 GTF using paftools.js, a companion script of...
Droplet-based high throughput single cell sequencing techniques tremendously advanced our insight into cell-to-cell heterogeneity. However, those approaches only allow analysis of one extremity of the transcript after short read sequencing. In consequenc