User: Paul

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Paul930
Reputation:
930
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Trusted
Location:
European Union
Last seen:
3 days, 19 hours ago
Joined:
3 years, 11 months ago
Email:
b********@gmail.com

about me

Posts by Paul

<prev • 129 results • page 1 of 13 • next >
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Comment: C: KEGG data parse
... Could you please copy/paste more example of your text? I'll look at it :-) ...
written 4 weeks ago by Paul930
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Comment: C: For loop script
... Hi, please next time format your code to be better readable. Did you check my [question][1] - shell script to alignment paired-end reads? [1]: https://www.biostars.org/p/126698/ ...
written 6 weeks ago by Paul930
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Comment: C: KEGG data parse
... Hi, try to use sed: `sed 's/ \{1,\}/,/g' file` or if you prefer tr: `tr -s ' ' < file | tr ' ' ','` . And what about my script? Does it work to you? ...
written 6 weeks ago by Paul930
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Comment: C: Soft-clipping primer sequences in targeted sequencing: approaches and tools
... Thank you for information. I will check maybe all programs too. We can at least share our experiences here - maybe it helps somebody else :) ...
written 7 weeks ago by Paul930
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Comment: C: Soft-clipping primer sequences in targeted sequencing: approaches and tools
... Yeah I see, thank you for comment. I am still did not get right solution for this task. I hope someone maybe share more experiences in your thread. Did you already test GATK ClipReads versus BamClipper? ...
written 7 weeks ago by Paul930
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Answer: A: Soft-clipping primer sequences in targeted sequencing: approaches and tools
... Hi a have very similar [question][1] - please check my thread with some good post and comments. Some people using [BBMap suite][2]. I will be happy if you share some of your experience either. [1]: https://www.biostars.org/p/229624/#229644 [2]: https://sourceforge.net/projects/bbmap/ ...
written 7 weeks ago by Paul930
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Comment: C: Data Mining from my Genomic Coordinates
... Thank you Kevin for your sharing experience. I was thinking if I am only one person who faced this question :) ...
written 7 weeks ago by Paul930
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Comment: C: Data Mining from my Genomic Coordinates
... Of course I do not want to direct link only to this databases - share your favorite one!! ...
written 8 weeks ago by Paul930
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Data Mining from my Genomic Coordinates
... Hi everybody, lot of us faced problem when reporting variants need to check some of the variants in UCSC genome browser, NCBI, ClinVAr or Ensembl and many others databases and tools to collect about my variants as much information as possible. Of course there are tool to annotate my variants like V ...
vcf ngs coordinates database sql written 8 weeks ago by Paul930 • updated 8 weeks ago by Kevin Blighe9.3k
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Answer: A: How To Sort Bed Format File
... I am using simply: sort -k 1V,1 -k 2n,2 input.bed ...
written 9 weeks ago by Paul930

Latest awards to Paul

Commentator 6 weeks ago, created a comment with at least 3 up-votes. For C: For loop script
Student 6 weeks ago, asked a question with at least 3 up-votes. For How to compare assembly from Trinity and Velvet/Oases
Guru 8 weeks ago, received more than 100 upvotes.
Appreciated 8 weeks ago, created a post with more than 5 votes. For A: How To Filter Mapped Reads With Samtools
Student 8 weeks ago, asked a question with at least 3 up-votes. For How to compare assembly from Trinity and Velvet/Oases
Appreciated 8 weeks ago, created a post with more than 5 votes. For A: How To Filter Mapped Reads With Samtools
Good Answer 9 weeks ago, created an answer that was upvoted at least 5 times. For A: Compare two matrix
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For A: Fastq Convert To Fasta
Good Answer 9 weeks ago, created an answer that was upvoted at least 5 times. For C: Is bcf just a bgzipped vcf?
Appreciated 12 weeks ago, created a post with more than 5 votes. For A: How To Filter Mapped Reads With Samtools
Scholar 12 weeks ago, created an answer that has been accepted. For A: Help With Genotyping In My Vcf File
Teacher 12 weeks ago, created an answer with at least 3 up-votes. For A: Fastq Convert To Fasta
Good Question 3 months ago, asked a question that was upvoted at least 5 times. For Mask or trim primer sequences in Amplicon sequencing
Popular Question 3 months ago, created a question with more than 1,000 views. For Filter out specific reads from FASTQ files
Student 4 months ago, asked a question with at least 3 up-votes. For Calculating GC content from BAM file by BED file
Popular Question 4 months ago, created a question with more than 1,000 views. For How to extract contigs from FASTA file which contains specific sequence
Popular Question 5 months ago, created a question with more than 1,000 views. For How to compare assembly from Trinity and Velvet/Oases
Appreciated 6 months ago, created a post with more than 5 votes. For A: How To Filter Mapped Reads With Samtools
Student 6 months ago, asked a question with at least 3 up-votes. For How to compare assembly from Trinity and Velvet/Oases
Scholar 6 months ago, created an answer that has been accepted. For A: Help With Genotyping In My Vcf File
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: Fastq Convert To Fasta
Popular Question 6 months ago, created a question with more than 1,000 views. For How to extract contigs from FASTA file which contains specific sequence
Appreciated 6 months ago, created a post with more than 5 votes. For bash loop for alignment RNA-seq data
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: How To Filter Mapped Reads With Samtools
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: How To Filter Mapped Reads With Samtools

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