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1,000 results • Page 2 of 20
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44
votes
44
replies
23k
views
9 follow
bash loop for alignment RNA-seq data
RNA-Seq next-gen alignment
updated 8 months ago by 39k • written 9.1 years ago by ★ 1.5k
102
votes
44
replies
7.9k
views
22 follow
What Are Numbers Every Bioinformatician Should Know?
knowledge career
updated 12 weeks ago by 39k • written 9.8 years ago by 24k
121
votes
44
replies
19k
views
21 follow
What Is Your Favorite Question To Ask When Interviewing Potential Bioinformaticians?
subjective
updated 3 months ago by 39k • written 12.9 years ago by 5.3k
152
votes
44
replies
29k
views
29 follow
Which Bioinformatic Friendly Pipeline Building Framework?
scripting
updated 11 months ago by 39k • written 9.4 years ago by ★ 2.0k
196
votes
44
replies
69k
views
33 follow
Tutorial: Analysing Microarray Data In Bioconductor
microarray-analysis bioconductor
updated 4 months ago by 39k • written 10.7 years ago by 20k
57
votes
43
replies
14k
views
8 follow
Forum: Best RNA-Seq aligner: A comparison of mapping tools
NGS alignment genome RNA-Seq sequence
updated 11 weeks ago by 39k • written 4.3 years ago by 9.9k
170
votes
43
replies
16k
views
25 follow
Forum: Crac: Funny And/Or Weird Names For Bioinformatics Tools
humor
updated 4 weeks ago by 11k • written 10.2 years ago by 98k
1
vote
43
replies
2.5k
views
Database from .gbk files
database gbk ncbi
updated 6 weeks ago by • 0 • written 3.0 years ago by ▴ 10
185
votes
43
replies
79k
views
29 follow
Drawing Chromosome Ideograms With Data
chromosome visualization ideogram
updated 8 months ago by 39k • written 13.2 years ago by ★ 1.6k
59
votes
43
replies
18k
views
18 follow
Tutorial: Polish PacBio assembly with latest PacBio tools : an affordable solution for everyone
pbalign pacbio arrow smrt-limk
updated 10 weeks ago by 39k • written 5.7 years ago by ★ 1.4k
138
votes
42
replies
20k
views
22 follow
Forum: Are We Rude/Do We Expect Too Much From People Asking Questions On This Forum?
meta
updated 8 weeks ago by ★ 2.8k • written 10.0 years ago by ★ 1.6k
78
votes
42
replies
29k
views
25 follow
Tutorial: Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
fpkm rna-seq bioconductor
updated 19 days ago by 39k • written 9.6 years ago by ★ 7.7k
122
votes
42
replies
9.0k
views
21 follow
News: Help Make Biostar Better! Add Your Feedback, Opinions And Suggestions.
meta biostars
updated 3 months ago by 39k • written 10.5 years ago by 98k
8
votes
42
replies
3.8k
views
NaS (Nanopore Synthetic-long) help
Assembly preprocessing
updated 4 months ago by 39k • written 8.0 years ago by ▴ 290
202
votes
41
replies
23k
views
20 follow
Forum: Genomics is not Special. Computational Biologists are reinventing the wheel for big data biology analysis
genomics cram gatk galaxy
updated 3 months ago by 39k • written 8.5 years ago by ★ 5.2k
23
votes
41
replies
13k
views
10 follow
WGCNA modules and categorical traits relationship
WGCNA
updated 6 months ago by • 0 • written 5.4 years ago by ▴ 110
16
votes
41
replies
7.9k
views
How to extract information from headers of fasta file
sequence
updated 11 months ago by 39k • written 8.2 years ago by ▴ 70
13
votes
41
replies
1.7k
views
Is my file created completely
sam BWA-MEM BWA
updated 9 weeks ago by 39k • written 6.1 years ago by ▴ 10
167
votes
41
replies
87k
views
27 follow
Multiline Fasta To Single Line Fasta
sequence fasta
updated 3 months ago by • 0 • written 12.0 years ago by ▴ 240
98
votes
41
replies
4.6k
views
17 follow
Forum: I am really pissed off by the bioinformatics software world. Do/can we have a better solution?
software-error next-gen-sequencing
updated 7 weeks ago by 39k • written 6.7 years ago by ▴ 500
23
votes
41
replies
2.5k
views
6 follow
I want to correct the erroneous barcode file, and the Python code that I've written, using Biopython, is very slow. How can I make this process fast…
NGS biopython illumina WGS
updated 17 days ago by 39k • written 5 weeks ago by ▴ 30
18
votes
41
replies
11k
views
6 follow
paired end illumina reads
Assembly paired end
updated 10 months ago by 39k • written 7.6 years ago by ▴ 290
18
votes
40
replies
16k
views
16 follow
Tutorial: Easy way to run easily orthoMCL (Copy & paste)
all-v-all orthomcl
updated 10 weeks ago by 39k • written 6.9 years ago by ▴ 170
6
votes
40
replies
9.3k
views
Fastx_Collapser Has No Fastq Output
fastx RNA-seq
updated 12 weeks ago by 39k • written 9.7 years ago by ▴ 240
151
votes
39
replies
23k
views
20 follow
Forum: A Farewell To Bioinformatics
bioinformatics
updated 3 months ago by 39k • written 10.3 years ago by 3.0k
36
votes
39
replies
2.8k
views
11 follow
Forum: Survey/Vote: If you could double the speed of any three commandline tools, which three would they be?
blast RNA-Seq alignment next-gen-sequencing
updated 10 days ago by 39k • written 5.6 years ago by ▴ 130
18
votes
39
replies
3.0k
views
Tool: CBioInfCpp.h as a C++ lib containing some functions for bioinformatics
cpp
updated 6 days ago by 39k • written 4.1 years ago by ▴ 50
226
votes
39
replies
282k
views
33 follow
Gene Id Conversion Tool
mapping conversion
updated 9 months ago by 39k • written 13.6 years ago by ▴ 620
91
votes
39
replies
133k
views
19 follow
Extract Reads From A Bam File That Fall Within A Given Region
bam
updated 5 weeks ago by ▴ 120 • written 10.9 years ago by ▴ 370
25
votes
39
replies
4.7k
views
8 follow
Forum: Bioinformatics Study Group
study-group
updated 12 weeks ago by 39k • written 9.9 years ago by ▴ 440
69
votes
39
replies
3.4k
views
14 follow
Forum: Preparation for Bioinformatics.SE closing
meta biostars
updated 15 days ago by 39k • written 6.0 years ago by 13k
277
votes
39
replies
168k
views
29 follow
Tutorial: How to download raw sequence data from GEO/SRA
fastq SRA bam GEO
updated 9 weeks ago by 39k • written 8.8 years ago by 20k
81
votes
39
replies
6.2k
views
11 follow
News: State Of Biostar - Future Directions (January 2013)
biostars
updated 3 months ago by 39k • written 10.4 years ago by 98k
39
votes
38
replies
7.2k
views
9 follow
DNA composition - all k-mers and their frequency in some sequencing data
sequencing
updated 9 months ago by 39k • written 7.5 years ago by 13k
100
votes
38
replies
28k
views
34 follow
Forum: List of cloud genomics companies
cloud-genomics
updated 20 days ago by 21k • written 9.5 years ago by ★ 3.6k
48
votes
38
replies
15k
views
8 follow
Forum: Eukaryotic Genome Annotation in 2016
software genome annotation
updated 7 weeks ago by 39k • written 7.2 years ago by 11k
224
votes
38
replies
136k
views
29 follow
Tool: Converting Genome Coordinates From One Genome Version To Another (Ucsc Liftover, Ncbi Remap, Ensembl Api)
genome coordinates conversion liftover ensembl Tool
updated 5 months ago by ▴ 90 • written 10.2 years ago by 19k
47
votes
37
replies
7.4k
views
12 follow
Forum: The Organisation Of Really Contrived Acronyms (Orca)
acronyms
updated 12 weeks ago by 39k • written 9.8 years ago by 2.3k
110
votes
37
replies
7.1k
views
13 follow
Bioinformatics Career Survey 2011/2012
career
updated 3 months ago by 39k • written 11.7 years ago by 154k
43
votes
37
replies
1.7k
views
7 follow
Forum: Checking the quality and reliability in bioinformatics
reproducibility
updated 11 days ago by 39k • written 5.6 years ago by ★ 4.2k
244
votes
36
replies
8.0k
views
32 follow
Forum: Good Habit for Bioinformatics Analyst or Scientist
Analyst Scientist
updated 7 weeks ago by 39k • written 7.1 years ago by ★ 9.3k
49
votes
36
replies
7.4k
views
11 follow
Forum: New features and bug fixes for Biostar to work on during Google Summer of Code
meta biostars gsoc
updated 3 months ago by 39k • written 9.1 years ago by ▴ 110
251
votes
36
replies
31k
views
27 follow
Forum: How Do You Manage Your Files & Directories For Your Projects ?
project-management file-management
updated 9 weeks ago by 39k • written 13.1 years ago by 154k
9
votes
36
replies
10k
views
18 follow
Convert Gene IDs of Tomato Sol Database
tomato gene
updated 5 months ago by 39k • written 7.9 years ago by ▴ 170
14
votes
36
replies
3.0k
views
6 follow
GPL6883_HumanRef-8_V3_0_R0_11282963_A (illumina expression beadchip)
R
updated 6 months ago by ★ 1.8k • written 2.5 years ago by ▴ 50
59
votes
36
replies
35k
views
27 follow
Pca From Vcf Files
pca genome vcf
updated 9 months ago by ▴ 40 • written 11.1 years ago by ▴ 820
148
votes
35
replies
59k
views
33 follow
Tutorial: Tools For Metagenomic Data Analysis
metagenomics next-gen
updated 3 months ago by 39k • written 10.5 years ago by ★ 1.6k
115
votes
35
replies
38k
views
20 follow
Forum: Snakemake vs. Nextflow: strengths and weaknesses
snakemake nextflow
updated 15 days ago by 39k • written 5.9 years ago by ▴ 760
76
votes
35
replies
26k
views
13 follow
Illumina Instrument Type from fastq?
fastq
updated 26 days ago by ▴ 20 • written 6.9 years ago by 6.5k
65
votes
35
replies
19k
views
17 follow
Which Dna Compression Algorithms Are Actually Used?
dna
updated 9 months ago by 154k • written 12.0 years ago by ▴ 270
1,000 results • Page 2 of 20
Recent Votes
Comment: DEgs RNAseq
Answer: ScRNA data
Answer: extract all fasta sequence from db v5
Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, but the Max expression are near 20,000
Comment: Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, b
Answer: Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, b
A: extract dendrogram cluster from pheatmap
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Recent Replies
Comment: Single cell chemistry by David • 0
Unlikely, this data came from a experienced sequencing team, I 'm the inexperienced data analyst. I'm not sure if these samples are 10x, …
Comment: Single cell chemistry by David • 0
Sorry, I did not explain it well. I did it before with other group of samples and different chemistry, so cellranger is working fine in my…
Comment: Do bioinformaticians often break molecular biologists' hearts by being the first by jli.ww • 0
Based on my personal experience as a computational biologist, I was not a co-first author even if I prioritized the candidates from the pub…
Comment: DEgs RNAseq by Juan • 0
Dear Delaney Sullivan, thanks, finlly I did my analisys
Answer: ScRNA data by Dr William Klubinski ▴ 20
It seems like your single cell RNAseq data does not already contain the Cell Barcodes or Unique Molecular Identifiers in the standard way -…
Comment: Demultiplexing bam file by GenoMax 129k
> Part of the header of the bam file So perhaps there are more samples. https://www.biostars.org/u/21477/: `grep "SM*" header_of_bam`. Is…
Answer: extract all fasta sequence from db v5 by GenoMax 129k
If you need the fasta sequence download from NCBI here (146 GB zip compressed file) : https://ftp.ncbi.nih.gov/blast/db/FASTA/nr.gz
Comment: ScRNA data by GenoMax 129k
Is this from a SRA dataset? If so it is possible that you can get the correct information in `DataAccess` tab. Provide the accession number…
Comment: extract all fasta sequence from db v5 by Pierre Lindenbaum 154k
is version 4 compatible with blast v5 ? try to use version 4....
Comment: Pre-processing for Agilent microarray data? by solarchan7 • 0
thank you!
Comment: Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, b by alwayshope ▴ 20
Thanks a lot! Very helpful detailed guidance! Appreciate it a lot!
Answer: Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, b by Dr William Klubinski ▴ 20
The values you are getting, with a third quartile of appx 10 and a max of appx 20,000, seem quite standard for RNA-Seq analysis. The RNA-se…
Comment: Demultiplexing bam file by Pierre Lindenbaum 154k
you don't talk about the size in your question
Comment: Demultiplexing bam file by hasani.iut6 ▴ 60
so why the size of bam file is 40 gig?
Comment: Demultiplexing bam file by Pierre Lindenbaum 154k
> I want to separate every sample I don't understand. In your header there is only one sample : "`13.02.1402_POOL2"`
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