Originally posted by flxlex
View Post
Thanks very much though
-
Yeah I tried that but you end up with huge contig numbers owing to the short (pseudo-shotgun) 454 reads. Couldnt find a way to keep the mate pair info so have switched assembler to MIRA. If anyone knows how to do it in MaSuRCA I'd be keen to know though.
Thanks very much though -
It probably doesn't. Split the 454 paired reads using sfftools from Roche, or sff_extract (see methods section of https://flxlexblog.wordpress.com/201...substr-mg1655/)Leave a comment:
-
MaSurCA 454 PE + Illumina 2x250 PE Assembly Issue
I'm having some issues using MaSurCA to perform a hybrid assembly using 454 PE and Illumina 2x250 PE data for a ~2Mbp bacterial genome. Have converted the .sff to .frg with the necessary linkers using sffToCA. Number of contigs from the hybrid assembly is 900 whereas it is 75 if I only use the illumina data.
Have run out of ideas - any suggestions (except for ditch the 454 data) would be very welcome!
Thanks
David
-
Cancer research has been transformed through numerous molecular techniques, with RNA sequencing (RNA-seq) playing a crucial role in understanding the complexity of the disease. Maša Ivin, Ph.D., Scientific Writer at Lexogen, and Yvonne Goepel Ph.D., Product Manager at Lexogen, remarked that “The high-throughput nature of RNA-seq allows for rapid profiling and deep exploration of the transcriptome.” They emphasized its indispensable role in cancer research, aiding in biomarker...09-07-2023, 11:15 PM -
Ribonucleic acid (RNA) represents a range of diverse molecules that play a crucial role in many cellular processes. From serving as a protein template to regulating genes, the complex processes involving RNA make it a focal point of study for many scientists. This article will spotlight various methods scientists have developed to investigate different RNA subtypes and the broader transcriptome.
Whole Transcriptome RNA-seq
Whole transcriptome sequencing...08-31-2023, 11:07 AM
Leave a comment: