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Forum: Cloud Computing Services available?
resources Services Computing Cloud Bioinformatics
updated 2 days ago by ★ 1.2k • written 5 weeks ago by ★ 2.1k
33
votes
5
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15k
views
9 follow
Forum: How do I explain to my non-bioinformatician labmates how to interpret principal components?
RNA-Seq communication analysis pca
updated 5 days ago by 36k • written 6.6 years ago by ▴ 580
3
votes
2
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1.5k
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Forum: Video Course - Intro to the Command Line for Computational Science
education training command-line
updated 5 days ago by 36k • written 6.6 years ago by ▴ 70
1
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2
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1.6k
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Forum: Survey: Gene Expression Data Analysis Learning Effort
RNA-Seq education teaching data-analysis survey
updated 5 days ago by 36k • written 6.6 years ago by ▴ 170
6
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3
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2.1k
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Forum: Field of work for software engineer in bioinformatics
jobs programming software Forum
updated 5 days ago by 36k • written 6.6 years ago by ▴ 10
13
votes
17
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3.0k
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6 follow
Forum: Advice for undergraduate bioinformatics learners
advice
updated 15 hours ago by 36k • written 6.7 years ago by ▴ 10
10
votes
3
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4.1k
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Forum: uBAM & metadata - the death of Fastq?
GATK
updated 3 days ago by 36k • written 6.6 years ago by 13k
2
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7
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1.8k
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Forum: Illumina no longer services instruments purchased through third parties
Illumina HiSeq
updated 2 days ago by 36k • written 6.6 years ago by ▴ 20
19
votes
6
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2.1k
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Forum: Genome assembly is hard: the tardigrade genome.
Assembly
updated 2 days ago by 36k • written 6.6 years ago by 94k
19
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13
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2.3k
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7 follow
Forum: Has anyone tried the new LFQC compression scheme for FASTQ?
fastq compression
updated 15 hours ago by 36k • written 6.7 years ago by 7.3k
4
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6
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4.0k
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6 follow
Forum: Hot research areas in Bioinformatics for career development
research-areas
updated 1 day ago by 36k • written 6.7 years ago by ★ 2.1k
11 results • Page 1 of 1
Recent Votes
Answer: convert .bed format to .txt format
Answer: convert .bed format to .txt format
Answer: Extract nucleotide sequence from a RefSeq Transcript ID
Answer: Extract nucleotide sequence from a RefSeq Transcript ID
Answer: R - cleanest way to calculate mean of a columnX in dataset1, columnZ in dataset2
Answer: R - cleanest way to calculate mean of a columnX in dataset1, columnZ in dataset2
find / score transcription factors based on motifs
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Recent Replies
Answer: Stringtie skips some reference genes by Antonio R. Franco ★ 4.9k
If using RNA, I would expect not having the complete set of genes being expressed
Comment: convert .bed format to .txt format by rheab1230 ▴ 60
Yes, I was able to view it. Thank you.
Comment: Extract nucleotide sequence from a RefSeq Transcript ID by Vincent Laufer ★ 2.2k
thank you!!!!!!!!!!! this was so helpful. makes me think we convenient browser based tools etc. i really appreciate you.
Answer: Extract nucleotide sequence from a RefSeq Transcript ID by GenoMax 118k
Using [**Entrezdirect**][1]. Example for getting nucleotides 1101 to 1120. $ efetch -db nuccore -id NM_001346941.2 -seq_start 1101 -se…
Comment: Using whole exome data from different protocols by m.bamajboor • 0
I have similer question regarding the kits used for sequencing. I'm in a process of calculating the allele frequency of a group of samples,…
Comment: vcf2maf allele frequency not converting by hamrejr • 0
Thanks. I am trying to get this on the maf from the vcf. So the command I am using is: vcf2maf.pl --input-vcf .vcf --output-maf .vcf.m…
Comment: [RNAseq, featureCounts] Can paired-end data be processed as single end? by Luka • 0
The IDs were indeed a problem, the processing worked after changing them. Thanks for all the help!
Answer: vcf2maf allele frequency not converting by Pierre Lindenbaum 147k
not tested but that could be: paste <(bcftools view in.vcf | grep -v "^#") <(bcftools query -f '%INFO/AF\n' in.vcf)
Comment: Cannot install ATHLATES, issues with bamtools by gogo21 • 0
yeah I am also getting the same issue is this issue due to wrong path provided ?
Comment: Dual index barcode demultiplex issue by BioRyder ▴ 220
Hello @devon / John Marshall We have noticed some exceptional cases in our recent Novaseq run. We were using 'Dual Index Bio Scientific-…
Comment: R - cleanest way to calculate mean of a columnX in dataset1, columnZ in dataset2 by Bianca • 0
I found out why. I was loading plyr after dplyr, that was my problem. I removed library(plyr) from my code and only loaded (dplyr). Now it …
Answer: merging data; remove extra rows by swbarnes2 12k
Is this RSEM format? Or some other format that txinport can handle?
Comment: R - cleanest way to calculate mean of a columnX in dataset1, columnZ in dataset2 by Bianca • 0
Hello, that did not work. It returned the mean value of all the data frames combined and the sum of all the data frames combined. It return…
Comment: What is the best way to rank genes for GSEA? by hermidalc ▴ 20
Just because you see something in published papers doesn't mean it's good or recommended, a lot of authors miss things or do not have a dee…
Comment: Cannot call haplotypes on bam by Shred ▴ 730
Sure. Use bwa instead
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