User: NGS-Newbie

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NGS-Newbie10
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Posts by NGS-Newbie

<prev • 31 results • page 1 of 4 • next >
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Comment: C: bowtie-2 build error
... Thank you WouterDeCoster! Would there be any workarounds? MinGW (as I understand this is a minimalist version of CygWin) or Ubuntu? ...
written 2.8 years ago by NGS-Newbie10
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Comment: C: bowtie-2 build error
... Thanks, h.mon! I am trying to figure out if I could use it at all on windows. ...
written 2.8 years ago by NGS-Newbie10
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bowtie-2 build error
... Hi All I am trying to build bowtie index, on Windows 10 using CygWin. Getting the following error when I run - `bowtie2-build myfile.fa index_file` Traceback (most recent call last): File "/usr/local/bin/bowtie2-build", line 95, in main() File "/usr/local/bin/bowtie2-build ...
bowtie2-build error written 2.8 years ago by NGS-Newbie10
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Comment: C: Adding .txt or .fa extension to UnixExecutable
... Hi mforde84 and Pierre I split one single file FASTA file with 100 reads (a subset from 75000+ reads; post merging and QC) into one hundred separate files, with one sequence each using `faSplit`. However, I could not give an extension to the one hundred split files, in absence of which on my mac th ...
written 2.8 years ago by NGS-Newbie10
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Answer: A: Adding .txt or .fa extension to UnixExecutable
... Thank you all! The following worked - for i in *; do mv "$i" "$i.txt"; done It's from here - http://osxdaily.com/2012/11/22/add-file-extension-group-of-files-os-x/ ...
written 2.8 years ago by NGS-Newbie10
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Adding .txt or .fa extension to UnixExecutable
... Hi All How can I add .txt or .fa extension to multiple 'Unix Executable' sequence files using terminal? Thanks! ...
adding extension to unixexecutable written 2.8 years ago by NGS-Newbie10 • updated 2.7 years ago by Biostar ♦♦ 20
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Comment: C: Splitting Individual FASTA/FASTQ reads from NGS data
... Awesome! Thanks, GenoMax! I just modified it a bit, as split -l 2 -a 15 File.fa S1Seq Thank you all! ...
written 2.8 years ago by NGS-Newbie10
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Comment: C: Splitting Individual FASTA/FASTQ reads from NGS data
... Thanks, genomax! Which program do I need to install to run this? FaSplit? ...
written 2.8 years ago by NGS-Newbie10
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Splitting Individual FASTA/FASTQ reads from NGS data
... Hi All I have subsets of 100 and 500 reads in FASTA and FASTQ formats. How can I split this one FASTA/FASTQ file with 100 reads into 100 FASTA files containing one sequence read each? Thank you all! ...
sorting individual fasta/fastq reads written 2.8 years ago by NGS-Newbie10
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Comment: A: Intrastrand CpG Methylation Data
... Thanks so much, Devon Ryan! What I am trying to achieve is the following - Background: 150 PE, targeted bisulfite sequencing, Illumina platform. I have both separate files of read pairs (R1 & R2) and a combined file of merged reads as well. Assuming there are five CpG sites in the 300 bp (me ...
written 2.8 years ago by NGS-Newbie10

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