User: ggman

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ggman80
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5 years, 8 months ago
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Posts by ggman

<prev • 44 results • page 1 of 5 • next >
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Comment: C: Gemma linear mixed model analysis with second grm format
... did you end up figuring out what caused this error on yours? ...
written 18 months ago by ggman80
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Comment: C: Segmentation fault using gemma
... I have gone up to 32 CPUs per task and 20 mem per cpu and it is still failing... I'm so confused. ...
written 18 months ago by ggman80
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Comment: A: Segmentation fault using gemma
... I have gone up to 32 CPUs per task and 20 mem per cpu and it is still failing... I'm so confused. ...
written 18 months ago by ggman80
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Segmentation fault using gemma
... Hi everyone, I am receiving an interesting error when I run gemma for a MLMM gwas... /var/spool/slurmd/slurm_script: line 27: 27058 Segmentation fault Is this an issue with my file or a memory error? I have seen conflicting posts on biostars and was hoping to seek clarification. ...
gemma gwas written 18 months ago by ggman80
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Comment: C: Exacting all the headers in a fasta file using R
... Yikes, amended to be CSV ...
written 19 months ago by ggman80
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Answer: A: Exacting all the headers in a fasta file using R
... grep "^>" | sed 's/;/,/g' > Command line answer. Grep will search for ">" and sed will substitute ";" with a tab creating new columns. the last ">" will output your results to the new file name you indicated. ...
written 19 months ago by ggman80
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Comment: C: PLINK vcf to binary files error: Unused command line option: --vcf
... Where's the command you're running? All I see is the input and directed output. ...
written 19 months ago by ggman80
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Comment: A: Folding RNA on python
... awk '{print $1"\t"$n}' fill in as whatever the column the value is in, assuming it is a tab deliminated file. $1 is the sample name if not... substitute that for wherever the sample name is on that file. like Brett said... can't really help you if we don't know what file type you are looking at. ...
written 20 months ago by ggman80
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Comment: C: BWA-MEM Syntax Understanding
... Gotcha, thanks Devon! ...
written 2.1 years ago by ggman80
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BWA-MEM Syntax Understanding
... Hey all, I am trying to switch over from bowtie to BWA. There are many options that I don't understand once you attempt to align reads to the reference genome. Would it be better to leave these options as default, especially when it comes to the scoring? GG ...
bwa-mem alignment written 2.1 years ago by ggman80 • updated 2.1 years ago by Devon Ryan97k

Latest awards to ggman

Popular Question 18 months ago, created a question with more than 1,000 views. For Using BioPerl to retrieving multiple sequences from a genome
Popular Question 18 months ago, created a question with more than 1,000 views. For GC percent script; reading a fasta formatted data
Popular Question 18 months ago, created a question with more than 1,000 views. For x-axis is not displaying all my scaffolds in qqman r package
Popular Question 18 months ago, created a question with more than 1,000 views. For using blastall option in terminal
Popular Question 18 months ago, created a question with more than 1,000 views. For merging sequences from bedtools options -name, -tab into one file
Supporter 19 months ago, voted at least 25 times.
Popular Question 20 months ago, created a question with more than 1,000 views. For GC percent script; reading a fasta formatted data
Popular Question 2.3 years ago, created a question with more than 1,000 views. For GC percent script; reading a fasta formatted data
Student 2.3 years ago, asked a question with at least 3 up-votes. For samtools sorting and indexing
Epic Question 2.6 years ago, created a question with more than 10,000 views. For samtools sorting and indexing
Great Question 3.3 years ago, created a question with more than 5,000 views. For samtools sorting and indexing
Popular Question 3.3 years ago, created a question with more than 1,000 views. For GC percent script; reading a fasta formatted data
Popular Question 5.3 years ago, created a question with more than 1,000 views. For GC percent script; reading a fasta formatted data

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