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120,058 results • Page 3 of 2402
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117
votes
18
replies
41k
views
14 follow
What Are The Best Bioinformatics Course Materials And Videos (Available Online)?
education online
updated 7.7 years ago by ▴ 20 • written 13.5 years ago by ★ 1.3k
117
votes
59
replies
35k
views
23 follow
Help a graduate student going into Bioinformatics looking for a new personal laptop. Should I get a Mac or a PC?
hardware next-gen
updated 23 months ago by 44k • written 9.7 years ago by ▴ 30
117
votes
66
replies
49k
views
20 follow
Tutorial: [Deprecated] Fast download of FASTQ files from the European Nucleotide Archive (ENA)
aspera fastq-dump Fastq ENA
updated 22 months ago by 44k • written 6.5 years ago by 86k
116
votes
35
replies
9.0k
views
18 follow
Forum: Is Biostar Killing The Bioinformatics Core?
core biostars
updated 23 months ago by 44k • written 11.8 years ago by 23k
115
votes
21
replies
114k
views
14 follow
When To Choose Python Over Perl (And Vice Versa)?
python perl comparison
updated 12.8 years ago by ▴ 30 • written 13.2 years ago by ★ 2.6k
114
votes
7
replies
29k
views
7 follow
What Makes One Probability Distribution Better For Rna-Seq Than Another?
rna
updated 13.9 years ago by ▴ 140 • written 13.9 years ago by 23k
113
votes
24
replies
49k
views
17 follow
Workflow Or Tutorial For Snp Calling?
snp samtools alignment next-gen sequencing
updated 2.4 years ago by 44k • written 13.7 years ago by ▴ 480
113
votes
53
replies
8.5k
views
16 follow
Forum: Middle author, but not first author projects. How would you approach this?
authorship career-development
updated 19 months ago by 44k • written 5.8 years ago by ▴ 170
112
votes
56
replies
47k
views
23 follow
Gene Fusion Detection: Rna-Seq Data
rna-seq next-gen sequencing fusion
updated 2.3 years ago by 44k • written 12.6 years ago by ▴ 380
110
votes
38
replies
103k
views
20 follow
Best Way To Merge A Many Thousand Small Bam Files Into One Big Bam File?
bam picard samtools merge
updated 2 days ago by 148k • written 13.5 years ago by ★ 5.1k
110
votes
37
replies
9.6k
views
13 follow
Bioinformatics Career Survey 2011/2012
career
updated 23 months ago by 44k • written 13.3 years ago by 164k
110
votes
81
replies
37k
views
17 follow
Duplicates on Illumina
duplicates illumina
updated 2.4 years ago by 148k • written 8.0 years ago by ★ 2.1k
109
votes
15
replies
120k
views
16 follow
Convertion Of Gff3 To Gtf
gtf gff
updated 9 months ago by ▴ 140 • written 12.6 years ago by 12k
108
votes
45
replies
89k
views
30 follow
How To Extract A Sequence From A Big (6Gb) Multifasta File ?
fasta
updated 2.4 years ago by ▴ 110 • written 12.5 years ago by ▴ 320
107
votes
110
replies
54k
views
29 follow
Tutorial: Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
1000genomes PLINK PCA
updated 26 days ago by • 0 • written 6.4 years ago by 88k
107
votes
27
replies
28k
views
12 follow
Why You Need Perl/Python If You Know R/Shell [Ngs Data Analysis]
python next-gen
updated 3.0 years ago by 44k • written 12.8 years ago by 11k
106
votes
12
replies
84k
views
7 follow
Bedtools Compare Multiple Bed Files?
bedtools intersect
updated 2.2 years ago by 44k • written 13.2 years ago by ★ 1.7k
106
votes
6
replies
29k
views
6 follow
Tutorial: Creating workflows with snakemake and conda
workflow snakemake conda
updated 22 months ago by 44k • written 6.4 years ago by 16k
106
votes
27
replies
16k
views
14 follow
Is There Such A Thing As A Ucsc Api?
ucsc python comparative api
updated 3.6 years ago by ★ 1.7k • written 14.2 years ago by 2.3k
106
votes
23
replies
23k
views
16 follow
Forum: How Did You Learn Good Practice In Bioinformatics/Computational Biology?
bioinformatics
updated 22 months ago by 44k • written 10.9 years ago by ▴ 590
106
votes
27
replies
45k
views
24 follow
How To Create Mutation Diagram In R Or In Any Tools?
mutation domain r
updated 4 months ago by ▴ 10 • written 12.0 years ago by ▴ 810
105
votes
46
replies
14k
views
13 follow
Forum: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
epigenetics
updated 22 months ago by 44k • written 11.4 years ago by ★ 1.1k
105
votes
21
replies
22k
views
19 follow
Why Should I Use Galaxy ?
galaxy workflow
7.7 years ago by Pierre Lindenbaum 164k
105
votes
72
replies
19k
views
17 follow
Digesting Fasta Sequences Into A Set Of Smaller Sequences
code fasta sequence codegolf
updated 6.3 years ago by 12k • written 14.5 years ago by 11k
103
votes
27
replies
94k
views
21 follow
Extract Sub-Set Of Regions From Vcf File
vcf tabix genome filter
updated 20 months ago by • 0 • written 12.6 years ago by ▴ 850
103
votes
34
replies
122k
views
23 follow
How To Split A Bam File By Chromosome
bam
updated 12 months ago by 44k • written 12.6 years ago by ▴ 390
103
votes
9
replies
134k
views
11 follow
How To Merge Two Fastq.Gz Files?
merge fastq
updated 2.7 years ago by ▴ 40 • written 11.3 years ago by ▴ 790
103
votes
20
replies
31k
views
16 follow
What Wetlab Techniques Does A Bioinformatician Need To Be Able To Perform, If Any?
education meta
updated 13.8 years ago by ★ 1.6k • written 13.8 years ago by 3.2k
103
votes
42
replies
32k
views
34 follow
Forum: List of cloud genomics companies
cloud-genomics
updated 12 weeks ago by 23k • written 11.2 years ago by ★ 3.6k
103
votes
6
replies
67k
views
6 follow
Insert Size And Fragment Size ?
3.2 years ago by Nicolas Rosewick 11k
102
votes
30
replies
63k
views
25 follow
Tools To Find Gene Ontology Term Enrichment
gene enrichment
updated 14 months ago by 44k • written 14.9 years ago by ★ 1.0k
102
votes
44
replies
9.8k
views
22 follow
What Are Numbers Every Bioinformatician Should Know?
knowledge career
updated 22 months ago by 44k • written 11.4 years ago by 24k
102
votes
19
replies
19k
views
15 follow
How Does A Bioinformatics Scientist Document His/Her Work?
workflow
updated 23 months ago by 44k • written 12.6 years ago by ▴ 840
101
votes
19
replies
36k
views
19 follow
Tutorial: Heatmaps in R
heatmap R
updated 3 months ago by ▴ 50 • written 8.4 years ago by 27k
100
votes
12
replies
38k
views
14 follow
Best Software For Detection Of Somatic Mutations From Matched Tumor:Normal Ngs Data
somatic-mutation variant-calling SNV
updated 3.3 years ago by 44k • written 12.8 years ago by ★ 2.8k
100
votes
16
replies
79k
views
15 follow
How Much Coverage Do We Need For An Rna-Seq Experiment?
rna-seq coverage
10.1 years ago by Obi Griffith 20k
99
votes
8
replies
30k
views
8 follow
Tutorial: Guide to TCGA data
cancer RNA-Seq clinical TCGA
updated 21 months ago by 44k • written 8.9 years ago by ★ 1.1k
99
votes
39
replies
175k
views
19 follow
Extract Reads From A Bam File That Fall Within A Given Region
bam
updated 21 months ago by ▴ 180 • written 12.5 years ago by ▴ 390
99
votes
19
replies
76k
views
13 follow
Sequence length from Fasta
fasta
updated 5 months ago by ▴ 140 • written 10.2 years ago by ▴ 90
99
votes
44
replies
25k
views
33 follow
Best Free Text Editor For All Popular Languages (R, Python, Perl Etc..)
text r perl python
updated 7.4 years ago by ★ 2.6k • written 12.9 years ago by ★ 1.5k
99
votes
24
replies
18k
views
16 follow
Workflow management software for pipeline development in NGS
pipeline workflow
updated 3.0 years ago by 44k • written 10.3 years ago by ▴ 310
99
votes
21
replies
9.6k
views
14 follow
Forum: How Has Bioinformatics Improved Over Time?
bioinformatics
updated 23 months ago by 44k • written 12.0 years ago by ▴ 370
98
votes
41
replies
7.3k
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 21 months ago by 44k • written 8.4 years ago by ▴ 510
98
votes
21
replies
57k
views
13 follow
Should We Remove Duplicated Reads In Rna-Seq ?
rna-seq read
updated 11.1 years ago by ▴ 250 • written 12.2 years ago by ▴ 290
98
votes
12
replies
58k
views
6 follow
Ensembl-Ids Vs. Entrez-Ids
ensembl entrez gene
updated 3.8 years ago by ▴ 10 • written 13.0 years ago by ▴ 420
98
votes
19
replies
98k
views
12 follow
How To Get The Sequence Of A Genomic Region From Ucsc?
ucsc fasta sequence
updated 15 months ago by 44k • written 14.9 years ago by 28k
97
votes
26
replies
11k
views
15 follow
Do You Trust Bio-Xxx Projects ?
biopython bioperl biojava subjective
updated 14.0 years ago by 11k • written 14.0 years ago by ★ 2.2k
97
votes
35
replies
27k
views
16 follow
Disease Associated Snps
snp gwas database
updated 11.0 years ago by • 0 • written 14.6 years ago by ★ 1.5k
97
votes
23
replies
34k
views
15 follow
Is Tophat The Only Mapper To Consider For Rna-Seq Data?
bwa tophat rna-seq
updated 2.7 years ago by 44k • written 12.0 years ago by ▴ 330
96
votes
26
replies
32k
views
15 follow
What Methods Do You Use For In/Del/Snp Calling?
short-read-aligner snp sequencing
updated 14 months ago by 44k • written 14.8 years ago by 164k
120,058 results • Page 3 of 2402
Recent Votes
A: why all the reads in fastq files have the same quality value?
align PacBio data using unaligned bam file
align PacBio data using unaligned bam file
Answer: NA12878, NA12891 and NA12892 gold standard samples information
Comment: Script that should show if the position of an indel is within the range of a miR
SAMTOOLS flagstat outputs
Comment: Unexpected spliced/unspliced percentages in scRNA-seq data
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Recent Replies
Comment: Spliced and unspliced counts from HIVE scRNA-seq data by anna_o • 0
Hi Alex, Thanks a lot! I will definitely try this. Anna
Comment: missing data in taxonomy by noodle ▴ 600
I'm doing an msa of protein regions from `diamond blastp` and would like to split the sequences at different points in classification (prio…
Comment: missing data in taxonomy by GenoMax 148k
> I'm trying to intersect some taxonomy datasets Can you describe the exact analysis you are doing and how absence of the `class` designa…
Comment: Proteomics data analysis by ATpoint 86k
I mean one or many proteins you know are not DE. Like a known constant baseline.
Answer: Degree of Freedom Settings in edgeR limma by ATpoint 86k
The degrees of freedom are not an option that you can choose as will. It is determined by your sample size and the number of covariates in …
Comment: NA12878, NA12891 and NA12892 gold standard samples information by GenoMax 148k
You will need to download the fastq data and align it yourself, if BAM's are not available. You should probably do that for all three to be…
Comment: NA12878, NA12891 and NA12892 gold standard samples information by heureuse • 0
yes I saw them there as well but I don't know how to download the BAM. Thanks
Answer: NA12878, NA12891 and NA12892 gold standard samples information by GenoMax 148k
Sequence data and other files are available via links noted on Illumina's platinum genomes page: https://www.illumina.com/platinumgenomes.h…
Comment: Script that should show if the position of an indel is within the range of a miR by jhonatan.henrique • 0
I got it. Thanks for your help and sorry for the delay in responding.
Comment: Merge paired end reads after mapping in BAM files by GenoMax 148k
For case #1 you can use tools like `bbmerge.sh`, FLASH, PEAR etc before you align the data. If the reads overlap then they will merge. No n…
Comment: Why only C > A,T,G and T > A,G,C mutations typically considered in 96 SBS contex by i.sudbery 21k
It does imply that, yes. It does not necessarily make it true though. Any mutation that has been replicated will be make a mutation present…
Comment: Proteomics data analysis by Ariadna ▴ 20
By reference proteins do you mean those which have similar distribution among cancer subtypes or those which might have been/might be calcu…
Comment: Extracting CDS Region of FFAR4 Gene Using Samtools from GRCh38 Reference Genome by jkbonfield ★ 1.3k
Samtools simply isn't designed for this sort of thing. The use of fasta is primarily for purposes of supplying a reference sequence, not f…
Comment: Proteomics data analysis by ATpoint 86k
Are there any reference proteins to base normalization on? Median normalization of just 11 proteins is tricky in the sense that it implies …
Comment: Proteomics data analysis by GenoMax 148k
https://www.biostars.org/u/30615/ You can use `>` (or the `"` icon in edit window) to `quote` parts of a post that you want to respond to w…
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