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109,083 results • Page
2 of 2182
Sort: Views
Rank
Views
Votes
Replies
238
votes
176
replies
84k
views
73 follow
Tutorial:
Survival analysis of TCGA patients integrating gene expression (RNASeq) data
RNA-Seq
Survival
TCGA
updated 5 months ago by
Ram
38k • written 7.7 years ago by
TriS
★ 4.6k
84
votes
16
replies
84k
views
9 follow
Number of mapped reads from BAM file
bam
sam
reads
mapping
updated 4 months ago by
bhanu.chandra1
▴ 50 • written 8.0 years ago by
Prakki Rama
★ 2.6k
99
votes
31
replies
81k
views
18 follow
Best Way To Merge A Many Thousand Small Bam Files Into One Big Bam File?
bam
picard
samtools
merge
updated 8 months ago by
Ram
38k • written 11.7 years ago by
2184687-1231-83-
★ 5.0k
79
votes
22
replies
81k
views
16 follow
How To Split One Big Sequence File Into Multiple Files With Less Than 1000 Sequences In A Single File
next-gen
sequencing
fasta
rna
r
perl
updated 4 months ago by
Ram
38k • written 11.4 years ago by
Hamilton
▴ 290
106
votes
45
replies
80k
views
30 follow
How To Extract A Sequence From A Big (6Gb) Multifasta File ?
fasta
updated 6 months ago by
aswinssoman
▴ 20 • written 10.7 years ago by
Mchimich
▴ 320
70
votes
20
replies
80k
views
15 follow
How To Get Ensembl Id (Gene, Transcript, Protein) Mapping Information?
ensembl
identifiers
mapping
updated 11 weeks ago by
Ram
38k • written 12.4 years ago by
Unode
▴ 180
55
votes
11
replies
79k
views
8 follow
merge large amount of fastq files into a single one
ChIP-Seq
fastq
updated 9 months ago by
Ram
38k • written 8.0 years ago by
catherine
▴ 220
185
votes
43
replies
78k
views
29 follow
Drawing Chromosome Ideograms With Data
chromosome
visualization
ideogram
updated 6 months ago by
Ram
38k • written 13.0 years ago by
Yuri
★ 1.6k
120
votes
8
replies
77k
views
GRCh37/38(NCBI) vs hg19/hg38(UCSC)
ncbi
ucsc
grch38
hg38
updated 14 months ago by
Ram
38k • written 8.5 years ago by
pwg46
▴ 520
33
votes
4
replies
76k
views
7 follow
Merging Bam Files
picard
samtools
updated 3.9 years ago by
abhijit.synl
▴ 60 • written 11.2 years ago by
Tryingtogetthere
▴ 180
136
votes
25
replies
75k
views
14 follow
Tutorial:
Piping With Samtools, Bwa And Bedtools
unix
samtools
bwa
bedtools
updated 11 months ago by
Ram
38k • written 10.9 years ago by
Ying W
★ 4.2k
99
votes
16
replies
75k
views
15 follow
How Much Coverage Do We Need For An Rna-Seq Experiment?
rna-seq
coverage
8.3 years ago by
Obi Griffith
20k
126
votes
24
replies
74k
views
18 follow
Sequence Length Distribution From A Fastq File
sequence
length
fastq
updated 3.9 years ago by
LuckyLuck
• 0 • written 9.9 years ago by
deepthithomaskannan
▴ 360
157
votes
62
replies
74k
views
37 follow
Selecting Random Pairs From Fastq?
random
fastq
sequence
illumina
code
updated 9 months ago by
erin.baschal
• 0 • written 12.0 years ago by
Ketil
4.1k
94
votes
25
replies
74k
views
20 follow
Extract Sub-Set Of Regions From Vcf File
vcf
tabix
genome
filter
updated 14 days ago by
4galaxy77
2.6k • written 10.8 years ago by
Rubal7
▴ 820
16
votes
12
replies
73k
views
8 follow
BLAST Database error: No alias or index file found for nucleotide database
blast
blastn
sift
makeblastdb
updated 7 months ago by
Luke
• 0 • written 8.4 years ago by
arronslacey
▴ 310
103
votes
12
replies
71k
views
7 follow
Bedtools Compare Multiple Bed Files?
bedtools
intersect
updated 5 months ago by
Ram
38k • written 11.4 years ago by
Bioscientist
★ 1.7k
20
votes
2
replies
71k
views
Subsetting in R based on row name?
R
updated 7.0 years ago by
Devon Ryan
103k • written 7.0 years ago by
hakimelakhrass
▴ 80
82
votes
21
replies
71k
views
13 follow
Tutorial:
How to Install SamTools, HTSLib, and BCFTools on Ubuntu 18.04
bcftools
samtools
htslib
updated 5 weeks ago by
cmdcolin
★ 2.9k • written 4.7 years ago by
otwtgin2010
▴ 540
43
votes
25
replies
70k
views
10 follow
Will A Masters In Bioinformatics Help Me In Getting A Job?
career
education
updated 12.0 years ago by
Eric Fournier
★ 1.4k • written 12.0 years ago by
Bioinfo
▴ 50
122
votes
17
replies
70k
views
8 follow
What Are Phased And Unphased Genotypes?
genotyping
genome
updated 12 months ago by
Ram
38k • written 11.9 years ago by
Nick
▴ 370
235
votes
45
replies
69k
views
34 follow
What Is The Best Pipeline For Human Whole Exome Sequencing?
next-gen
sequencing
illumina
exome
human
updated 11.8 years ago by
User 9126
▴ 50 • written 12.8 years ago by
Biomed
4.8k
67
votes
18
replies
69k
views
17 follow
Project For A Beginner Bioinformatics Student
project
java
updated 8 months ago by
Ram
38k • written 11.4 years ago by
And
▴ 230
33
votes
17
replies
69k
views
14 follow
How To Draw A Heat Map For Gene Expression Data?
microarray
heatmap
updated 9 weeks ago by
Ram
38k • written 11.8 years ago by
Fahmida
▴ 80
22
votes
2
replies
69k
views
How Can I Make A Bed File?
bed
updated 11.5 years ago by
John M
▴ 260 • written 11.5 years ago by
Omid
▴ 580
40
votes
14
replies
68k
views
9 follow
Synonymous And Non-Synonymous Snps
snp
updated 10 months ago by
Ram
38k • written 12.2 years ago by
Elena
▴ 250
194
votes
44
replies
68k
views
33 follow
Tutorial:
Analysing Microarray Data In Bioconductor
microarray-analysis
bioconductor
updated 11 weeks ago by
Ram
38k • written 10.5 years ago by
Obi Griffith
20k
188
votes
50
replies
67k
views
41 follow
How To Remove The Same Sequences In The Fasta Files?
fasta
sequence
duplicates
updated 6 months ago by
Ram
38k • written 12.4 years ago by
Zhangleisdau
▴ 340
59
votes
15
replies
67k
views
9 follow
BAM/SAM to FASTA conversion
sam
bam
updated 11 months ago by
Ram
38k • written 8.1 years ago by
biolab
★ 1.4k
138
votes
21
replies
67k
views
18 follow
Database Of Tumor Suppressors And/Or Oncogenes
cancer
gene
database
oncogene
tumor
2.5 years ago by
Malachi Griffith
19k
24
votes
23
replies
67k
views
7 follow
Multiple Histograms In One Plot
r
updated 15 months ago by
Ram
38k • written 9.8 years ago by
Assa Yeroslaviz
★ 1.8k
1
vote
2
replies
67k
views
"SyntaxError: unexpected EOF while parsing " IN PYTHON 3.7
PYTHON
updated 24 months ago by
Istvan Albert
97k • written 2.9 years ago by
geethus2009
• 0
74
votes
13
replies
65k
views
10 follow
Tutorial:
Machine Learning For Prediction of Relapse in Cancer - Part 2 - Building A Random Forest Classifier
r
cancer
classification
updated 4 months ago by
Ram
38k • written 9.4 years ago by
Nicholas Spies
★ 1.2k
40
votes
15
replies
65k
views
14 follow
Converting Affymetrix Probes To Gene Ids
affymetrix
conversion
entrez
updated 5 months ago by
Ram
38k • written 9.7 years ago by
Josh
▴ 140
19
votes
8
replies
64k
views
6 follow
Pheatmap Annotation
r
heatmap
updated 7.6 years ago by
wm
▴ 550 • written 10.1 years ago by
James
▴ 80
51
votes
18
replies
64k
views
10 follow
Extract User Defined Region From An Fasta File
sequence
fasta
updated 5.7 years ago by
tuomastik
▴ 30 • written 11.7 years ago by
Palu
▴ 290
111
votes
25
replies
64k
views
14 follow
Is My Bam File Sorted ?
bam
next-gen
sequencing
sort
updated 6 weeks ago by
Miguel
▴ 10 • written 12.2 years ago by
Pierre Lindenbaum
153k
35
votes
9
replies
64k
views
8 follow
Minor allele frequency calculation
SNP
next-gen
updated 10 months ago by
Ram
38k • written 8.4 years ago by
Tark
▴ 50
20
votes
15
replies
63k
views
12 follow
Python Script To Translate Rna Sequences To Protein Sequences
python
biopython
translation
updated 9.5 years ago by
viv_bio
▴ 50 • written 12.5 years ago by
Studentguy
▴ 70
53
votes
10
replies
63k
views
6 follow
Fold change - a final explanation
RNA-Seq
updated 2.6 years ago by
naloy
• 0 • written 4.5 years ago by
Sebastian Hesse
▴ 320
51
votes
15
replies
62k
views
15 follow
Any Recommendations For Software For Drawing Plasmid Maps?
visualization
software
updated 11 months ago by
Ram
38k • written 11.8 years ago by
Michael Petronio
▴ 70
40
votes
7
replies
62k
views
Clustering Data (Rna-Seq) Using R To Produce A Heatmap
r
rna
heatmap
clustering
gene
updated 9 months ago by
Ram
38k • written 11.4 years ago by
Kanne
▴ 450
50
votes
15
replies
62k
views
12 follow
Sequence Number Count In Fastq.Gz File
counts
sequence
fastq
updated 6 weeks ago by
Ram
38k • written 11.8 years ago by
Bioscientist
★ 1.7k
53
votes
4
replies
61k
views
What is difference between soft-clipped and hard-clipped in SAM specification?
sequence
next-gen-sequencing
updated 5 months ago by
Ram
38k • written 8.4 years ago by
mangfu100
▴ 800
25
votes
5
replies
61k
views
7 follow
Rpkm Calculation For Genes
rpkm
rna-seq
updated 10.4 years ago by
JC
13k • written 10.4 years ago by
siddharth.sethi5
▴ 270
36
votes
14
replies
60k
views
9 follow
What Is The Difference Between Hg18 And Hg19?
genome
hg
hg
updated 11.1 years ago by
Jorge Amigo
14k • written 11.1 years ago by
Sara
▴ 170
102
votes
30
replies
59k
views
25 follow
Tools To Find Gene Ontology Term Enrichment
gene
enrichment
tool
updated 9 months ago by
Ram
38k • written 13.1 years ago by
Biostar User
★ 1.0k
8
votes
6
replies
59k
views
How To Calculate Coverage
fastq
coverage
updated 9.2 years ago by
r.follador
▴ 90 • written 9.2 years ago by
HG
★ 1.2k
152
votes
24
replies
59k
views
19 follow
Recommended Tools For Alternative Splicing Detection From Rna-Seq Data
splicing
tools
rna-seq
alternative-splicing
updated 8 months ago by
Ram
38k • written 10.1 years ago by
Nicolas Rosewick
10k
361
votes
57
replies
59k
views
43 follow
Forum:
Recommend Your Favorite Bioinformatics Books
books
education
updated 6 months ago by
Kevin Blighe
84k • written 13.1 years ago by
Istvan Albert
97k
109,083 results • Page
2 of 2182
Recent Votes
smoothing or binning bigWig file
List of Ongoing and Planned Long Read Sequencing studies?
Are We Rude/Do We Expect Too Much From People Asking Questions On This Forum?
Answer: Read lengths greater than insert length
A: Changing Output From Gene ID to Symbol When Running findMarkers from Scran
Answer: BLAST Database error: No alias or index file found for nucleotide database
Answer: How to get gene from PSIBLAST resuts
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Recent Replies
Comment: split fasta file to train deep learning model
by
pinheirofabiano
▴ 10
@shenwei356, thank you very much for your help, perfect! But now I realized that some fasta sequences contain the letter "B", which is ou…
Comment: Most efficient way to run Diamond against a very very large database (i.e., NCBI
by
Mensur Dlakic
★ 23k
I think it depends on the speed of your local disks and the memory amount. On a single node, breaking up the database doesn't sound like a …
Comment: Sample size for population genetics
by
Jeremy Leipzig
21k
Other populations just make the model harder to generalize, not easier.
Comment: Are We Rude/Do We Expect Too Much From People Asking Questions On This Forum?
by
Vincent Laufer
★ 2.5k
i think there is some of that - my most upvoted comment of all time was a dismissive comment i made while extremely tired. for context i ha…
Comment: Molecular biologist / clinical pharmacologist (f/m/d)
by
Jeremy
▴ 770
Is this job on site in Vienna or remote?
Comment: smoothing or binning bigWig file
by
rls_08
▴ 40
if you use bigwigCompare , that would not create a sliding window, but instead, it will output the mean for each bin, according to the -bin…
Comment: Sample size for population genetics
by
zimmer.schweiz
• 0
Thank you so much for your answer. For common polygenic diseases, would it make sense to increase the number of populations sampled, in ord…
Answer: Sample size for population genetics
by
Jeremy Leipzig
21k
For a rare penetrant monogenic disease? A few cases. For a common polygenic disease or trait? 500k-10M
Answer: using GRanges metadata to constrain overlap searches between objects
by
seidel
11k
Rather than do all overlaps all the time for all samples, why not restrict the data by sample when you can. The code below works about 4 ti…
Comment: How to get gene from PSIBLAST resuts
by
Tom
• 0
Hello, thank you for your answer, I have a question, Why the information from the GFF file and from the feature table is different? I see …
Comment: SNP ID (rsID) to Chr no. and Position
by
Jewahir
• 0
Yeah, thank you for that!!
Comment: 1000 genomes hg38 with dbSNP rsid
by
Ram
38k
It should be pretty straightforward. Just to save you some pain, run these on the 1000g VCF once you download it: 1. `vt decompose -s` to …
Comment: 1000 genomes hg38 with dbSNP rsid
by
Vince
▴ 150
Yeah, I had some hope that I wouldn't need to mess with doing this ...
Answer: counting the unmapped reads
by
chemkhi.ali13
• 0
> Hi all, > > I have a sam file, my supervisor asked me to count the number of > unmapped reads, which command I should use? > > sam…
Comment: 1000 genomes hg38 with dbSNP rsid
by
Ram
38k
In that case, you'll need to get the VCF from 1000g - that's probably going to be the only place where individual level data is available, …
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