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Europeans have different Neolithic ancestry than South Asians
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[QUOTE]Originally posted by xyyman: [QB] Anyone can jump in any time....(wink). Capra, TheMaster, AstenB We do not have Lucas Martin and DNATribes to show us how it is done any more. But we have more freeware and more sophisticated tools. What about this? Download Abusir mummies genome which are BAM Files. Convert the BAM file to FASTQ. I believe IGV tool can do that. Run this FASTQ file in STRait Razor. Problem is I do not have a Linux OS. I understand IBM clones can either a Windows OS or Linux. With dual booth up. I just started playing around with MAC OS Lion. I am new to these systems outside of Windows. Thoughts? Oh! The other problem is only THREE complete genome of the Abusir was provided. Therefore only 3 datasets needs to be processed. The remaining mummies only their uniparental markers were released. Am I correct. Am I talking to the wall? He! He! HE! === STRait Razor: A length-based forensic STR allele-calling tool for use with second generation sequencing data Abstract Recent studies have demonstrated the capability of second generation sequencing (SGS) to provide [b]coverage of short tandem repeats (STRs) found within the human genome[/b]. However, there are relatively few bioinformatic software packages capable of detecting these markers[b] in the raw sequence data[/b]. The extant STR-calling tools are sophisticated, but are [b]not always applicable to the analysis of the STR loci commonly used in forensic analyses[/b]. STRait Razor is a newly developed Perl-based software tool that runs on the [b]Linux/Unix operating system[/b] and is designed to detect [b]forensically-relevant STR alleles in FASTQ sequence data[/b], based on allelic length. It is capable of analyzing STR loci with repeat motifs ranging from simple to complex without the need for extensive allelic sequence data. STRait Razor is designed to interpret both single-end and paired-end data and relies on intelligent parallel processing to reduce analysis time. Users are presented with a number of customization options, including variable mismatch detection parameters, as well as the ability to easily allow for the detection of alleles at new loci. In its current state, the software detects alleles for [b]44 autosomal and Y-chromosome STR loci[/b]. The study described herein demonstrates that STRait Razor is capable of detecting STR alleles in data generated by multiple library preparation methods and two Illumina® sequencing instruments, [b]with 100% concordance[/b]. The data also reveal noteworthy concepts related to the effect of different preparation chemistries and sequencing parameters on the bioinformatic detection of STR alleles. [/QB][/QUOTE]
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