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1,000 results • Page
2 of 20
Sort: Views
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Views
Votes
Replies
234
votes
176
replies
83k
views
73 follow
Tutorial:
Survival analysis of TCGA patients integrating gene expression (RNASeq) data
RNA-Seq
Survival
TCGA
updated 3 months ago by
Ram
37k • written 7.5 years ago by
TriS
★ 4.6k
83
votes
16
replies
82k
views
9 follow
Number of mapped reads from BAM file
bam
sam
reads
mapping
updated 10 weeks ago by
bhanu.chandra1
▴ 50 • written 7.8 years ago by
Prakki Rama
★ 2.6k
97
votes
31
replies
79k
views
18 follow
Best Way To Merge A Many Thousand Small Bam Files Into One Big Bam File?
bam
picard
samtools
merge
updated 6 months ago by
Ram
37k • written 11.6 years ago by
2184687-1231-83-
★ 5.0k
79
votes
22
replies
79k
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 10 weeks ago by
Ram
37k • written 11.3 years ago by
Hamilton
▴ 290
106
votes
45
replies
79k
views
30 follow
How To Extract A Sequence From A Big (6Gb) Multifasta File ?
fasta
updated 5 months ago by
aswinssoman
▴ 20 • written 10.5 years ago by
Mchimich
▴ 320
70
votes
20
replies
79k
views
15 follow
How To Get Ensembl Id (Gene, Transcript, Protein) Mapping Information?
ensembl
identifiers
mapping
updated 28 days ago by
Ram
37k • written 12.2 years ago by
Unode
▴ 180
185
votes
43
replies
78k
views
29 follow
Drawing Chromosome Ideograms With Data
chromosome
visualization
ideogram
updated 5 months ago by
Ram
37k • written 12.9 years ago by
Yuri
★ 1.6k
120
votes
8
replies
77k
views
GRCh37/38(NCBI) vs hg19/hg38(UCSC)
ncbi
ucsc
grch38
hg38
updated 13 months ago by
Ram
37k • written 8.4 years ago by
pwg46
▴ 520
55
votes
11
replies
77k
views
8 follow
merge large amount of fastq files into a single one
ChIP-Seq
fastq
updated 8 months ago by
Ram
37k • written 7.9 years ago by
catherine
▴ 220
33
votes
4
replies
75k
views
7 follow
Merging Bam Files
picard
samtools
updated 3.7 years ago by
abhijit.synl
▴ 60 • written 11.1 years ago by
Tryingtogetthere
▴ 180
99
votes
16
replies
75k
views
15 follow
How Much Coverage Do We Need For An Rna-Seq Experiment?
rna-seq
coverage
8.2 years ago by
Obi Griffith
20k
136
votes
25
replies
74k
views
14 follow
Tutorial:
Piping With Samtools, Bwa And Bedtools
unix
samtools
bwa
bedtools
updated 10 months ago by
Ram
37k • written 10.8 years ago by
Ying W
★ 4.2k
157
votes
62
replies
73k
views
37 follow
Selecting Random Pairs From Fastq?
random
fastq
sequence
illumina
code
updated 7 months ago by
erin.baschal
• 0 • written 11.9 years ago by
Ketil
4.1k
126
votes
24
replies
73k
views
18 follow
Sequence Length Distribution From A Fastq File
sequence
length
fastq
updated 3.8 years ago by
LuckyLuck
• 0 • written 9.7 years ago by
deepthithomaskannan
▴ 360
92
votes
24
replies
72k
views
19 follow
Extract Sub-Set Of Regions From Vcf File
vcf
tabix
genome
filter
updated 12 months ago by
ashotmarg2004
▴ 120 • written 10.7 years ago by
Rubal7
▴ 820
15
votes
12
replies
71k
views
8 follow
BLAST Database error: No alias or index file found for nucleotide database
blast
blastn
sift
makeblastdb
updated 5 months ago by
Luke
• 0 • written 8.3 years ago by
arronslacey
▴ 310
20
votes
2
replies
70k
views
Subsetting in R based on row name?
R
updated 6.8 years ago by
Devon Ryan
102k • written 6.8 years ago by
hakimelakhrass
▴ 80
103
votes
12
replies
70k
views
7 follow
Bedtools Compare Multiple Bed Files?
bedtools
intersect
updated 3 months ago by
Ram
37k • written 11.3 years ago by
Bioscientist
★ 1.7k
43
votes
25
replies
70k
views
10 follow
Will A Masters In Bioinformatics Help Me In Getting A Job?
career
education
updated 11.8 years ago by
Eric Fournier
★ 1.4k • written 11.8 years ago by
Bioinfo
▴ 50
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 11.6 years ago by
User 9126
▴ 50 • written 12.7 years ago by
Biomed
4.8k
122
votes
17
replies
69k
views
8 follow
What Are Phased And Unphased Genotypes?
genotyping
genome
updated 10 months ago by
Ram
37k • written 11.8 years ago by
Nick
▴ 370
33
votes
17
replies
68k
views
14 follow
How To Draw A Heat Map For Gene Expression Data?
microarray
heatmap
updated 15 days ago by
Ram
37k • written 11.7 years ago by
Fahmida
▴ 80
67
votes
18
replies
68k
views
17 follow
Project For A Beginner Bioinformatics Student
project
java
updated 6 months ago by
Ram
37k • written 11.2 years ago by
And
▴ 230
40
votes
14
replies
68k
views
9 follow
Synonymous And Non-Synonymous Snps
snp
updated 9 months ago by
Ram
37k • written 12.1 years ago by
Elena
▴ 250
76
votes
19
replies
68k
views
13 follow
Tutorial:
How to Install SamTools, HTSLib, and BCFTools on Ubuntu 18.04
samtools
bcftools
htslib
Tutorial
updated 12 days ago by
jcurry01
• 0 • written 4.5 years ago by
otwtgin2010
▴ 520
22
votes
2
replies
67k
views
How Can I Make A Bed File?
bed
updated 11.4 years ago by
John M
▴ 260 • written 11.4 years ago by
Omid
▴ 580
194
votes
44
replies
67k
views
33 follow
Tutorial:
Analysing Microarray Data In Bioconductor
microarray-analysis
bioconductor
updated 25 days ago by
Ram
37k • written 10.4 years ago by
Obi Griffith
20k
24
votes
23
replies
67k
views
7 follow
Multiple Histograms In One Plot
r
updated 14 months ago by
Ram
37k • written 9.6 years ago by
Assa Yeroslaviz
★ 1.8k
188
votes
50
replies
67k
views
41 follow
How To Remove The Same Sequences In The Fasta Files?
fasta
sequence
duplicates
updated 4 months ago by
Ram
37k • written 12.3 years ago by
Zhangleisdau
▴ 340
138
votes
21
replies
67k
views
18 follow
Database Of Tumor Suppressors And/Or Oncogenes
cancer
gene
database
oncogene
tumor
2.3 years ago by
Malachi Griffith
19k
1
vote
2
replies
66k
views
"SyntaxError: unexpected EOF while parsing " IN PYTHON 3.7
PYTHON
updated 22 months ago by
Istvan Albert
96k • written 2.8 years ago by
geethus2009
• 0
59
votes
15
replies
66k
views
9 follow
BAM/SAM to FASTA conversion
sam
bam
updated 9 months ago by
Ram
37k • written 8.0 years ago by
biolab
★ 1.4k
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 3 months ago by
Ram
37k • written 9.2 years ago by
Nicholas Spies
★ 1.2k
40
votes
15
replies
64k
views
14 follow
Converting Affymetrix Probes To Gene Ids
affymetrix
conversion
entrez
updated 4 months ago by
Ram
37k • written 9.6 years ago by
Josh
▴ 140
111
votes
24
replies
63k
views
12 follow
Is My Bam File Sorted ?
bam
next-gen
sequencing
sort
updated 5.8 years ago by
martin.triska
▴ 170 • written 12.0 years ago by
Pierre Lindenbaum
152k
19
votes
8
replies
63k
views
6 follow
Pheatmap Annotation
r
heatmap
updated 7.5 years ago by
wm
▴ 550 • written 9.9 years ago by
James
▴ 80
35
votes
9
replies
63k
views
8 follow
Minor allele frequency calculation
SNP
next-gen
updated 8 months ago by
Ram
37k • written 8.2 years ago by
Tark
▴ 50
51
votes
18
replies
63k
views
10 follow
Extract User Defined Region From An Fasta File
sequence
fasta
updated 5.5 years ago by
tuomastik
▴ 30 • written 11.5 years ago by
Palu
▴ 290
20
votes
15
replies
62k
views
12 follow
Python Script To Translate Rna Sequences To Protein Sequences
python
biopython
translation
updated 9.4 years ago by
viv_bio
▴ 50 • written 12.3 years ago by
Studentguy
▴ 70
40
votes
7
replies
62k
views
Clustering Data (Rna-Seq) Using R To Produce A Heatmap
r
rna
heatmap
clustering
gene
updated 7 months ago by
Ram
37k • written 11.2 years ago by
Kanne
▴ 450
51
votes
15
replies
62k
views
15 follow
Any Recommendations For Software For Drawing Plasmid Maps?
visualization
software
updated 9 months ago by
Ram
37k • written 11.6 years ago by
Michael Petronio
▴ 70
25
votes
5
replies
61k
views
7 follow
Rpkm Calculation For Genes
rpkm
rna-seq
updated 10.3 years ago by
JC
13k • written 10.3 years ago by
siddharth.sethi5
▴ 270
48
votes
13
replies
61k
views
9 follow
Sequence Number Count In Fastq.Gz File
counts
sequence
fastq
updated 13 months ago by
Ram
37k • written 11.6 years ago by
Bioscientist
★ 1.7k
53
votes
4
replies
60k
views
What is difference between soft-clipped and hard-clipped in SAM specification?
sequence
next-gen-sequencing
updated 3 months ago by
Ram
37k • written 8.2 years ago by
mangfu100
▴ 780
53
votes
10
replies
59k
views
6 follow
Fold change - a final explanation
RNA-Seq
updated 2.4 years ago by
naloy
• 0 • written 4.3 years ago by
Sebastian Hesse
▴ 320
36
votes
14
replies
59k
views
9 follow
What Is The Difference Between Hg18 And Hg19?
genome
hg
hg
updated 11.0 years ago by
Jorge Amigo
14k • written 11.0 years ago by
Sara
▴ 170
102
votes
30
replies
59k
views
25 follow
Tools To Find Gene Ontology Term Enrichment
gene
enrichment
tool
updated 7 months ago by
Ram
37k • written 12.9 years ago by
Biostar User
★ 1.0k
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 6 months ago by
Ram
37k • written 9.9 years ago by
Nicolas Rosewick
10k
2
votes
10
replies
58k
views
R: remove rows by a list of rownames
R
updated 9 months ago by
Ram
37k • written 8.0 years ago by
silvi_free88
▴ 50
17
votes
6
replies
58k
views
Turn Off Blast Search On Reverse Complement Strand In Blastn
sequence
blast
updated 2.5 years ago by
yasopi9568
• 0 • written 13.0 years ago by
Zhaorong
★ 1.4k
1,000 results • Page
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Recent Votes
C: Which genome files to use for STAR?
Answer: Remove mitochondrial reads from BAM files
Comment: translate CDS to prot formatted with nt nubers
Comment: Analyzing bulk RNA-seq
Comment: Analyzing bulk RNA-seq
Answer: How can I convert this pairwise format to fasta?
Comment: RNA seq analysis from the data file which received from company
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Comment: Diffbind losing peaks when going from small to larger consensus peak set
by
tara.mcintyre
• 0
I'm now realizing it might be due to the filter parameter being set =1 when I run dba.count because when I set it to 0, all of the peaks ar…
Answer: Obtaining every"Protein ID" from a genome in OMA
by
clement.train
▴ 40
Hello, It seems that the current download is limited to 100 genes on the genomes pages, we will increase this limit to the extent of ea…
Comment: DNA methylation (RRBS/WGBS) prediction from DNA sequence (WGS)
by
Lalaland
▴ 10
Thank you very much, Matthias! I will definitely check those links out myself!
Comment: RNA Editing data from RNA-seq
by
Juke34
7.5k
What tool did you look at ?
Comment: want the codes for Deseq2 to perform DEGs.
by
rupali
• 0
thanks for help
Comment: cellranger-arc mkfastq Error: bcl2fastq was killed with signal -11
by
Yingying
• 0
Hi, Yes I've uploaded the diagnostic file to 10x support already, but haven't got any response yet.
Comment: cellranger-arc mkfastq Error: bcl2fastq was killed with signal -11
by
GenoMax
125k
You may want to contact 10x tech support. When this process failed it must have created a diagnostic archive. You also get a message about …
Answer: How to merge unique/non overlapping genes between 2 gene model GFF3 files?
by
jv
▴ 780
`bedtools intersect -v` is one option for identifying the unique genes from the older gene model. <https://bedtools.readthedocs.io/en/lates…
Comment: Alien-hunter outputs
by
schlogl
▴ 130
@GenoMax Hope this helps...Thank you
Comment: DESeq2 results function runs very slow on Windows 10
by
ATpoint
68k
Does it go away if you remove the `parallel` from `results()`? After all, it is the `DESeq()` function that is the bottleneck when n is lar…
Comment: HTSeq error processing GFF file
by
ibq.enriquepola
• 0
enrique@L:~/bioinformatica/index/prueba$ head -n 997531 GCF_902167145.1_Zm-B73-REFERENCE-NAM-5.0_genomic.gff|tail -n 1 NC_007982.1 Ref…
Comment: Which file and data structure is used to create volcano plot from scRNA-Seq expe
by
Chris
▴ 60
Thank you for your help! I got an error that I could not find the solution on the Internet: library(EnhancedVolcano) Loading required…
Comment: HTSeq error processing GFF file
by
barslmn
★ 1.2k
I guess you can try to replace the "?" to a "." Also, you can copy and paste text instead of the screenshots?
Answer: DESeq2 results function runs very slow on Windows 10
by
Istvan Albert
96k
Note the following: https://support.bioconductor.org/p/115415/ it looks like it has to do with the Parallel=TRUE flag
Comment: DESeq2 results function runs very slow on Windows 10
by
GenoMax
125k
> there is a massive difference in performance between them. It still is taking only one minute.
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