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1,000 results • Page
1 of 20
Sort: Views
Rank
Views
Votes
Replies
226
votes
39
replies
286k
views
33 follow
Gene Id Conversion Tool
david
updated 5 weeks ago by
Ram
41k • written 14.1 years ago by
Renee
▴ 620
65
votes
3
replies
284k
views
Understanding up and down regulated genes from LOG2 foldchange or foldchange
protein
gene-expression
RNA-Seq
updated 8 months ago by
Ram
41k • written 9.5 years ago by
Whoknows
▴ 960
275
votes
29
replies
271k
views
25 follow
How To Filter Mapped Reads With Samtools
samtools
updated 12 months ago by
Ram
41k • written 11.1 years ago by
sohadb1357
▴ 630
328
votes
92
replies
230k
views
58 follow
Tools To Calculate Average Coverage For A Bam File?
coverage
bam
sequencing
updated 3 months ago by
kalavattam
▴ 190 • written 12.8 years ago by
Biomed
4.9k
43
votes
24
replies
202k
views
25 follow
How To Update R In Ubuntu ?
r
ubuntu
updated 20 months ago by
matthew.pace
▴ 60 • written 10.0 years ago by
Arpitha Hebbar
▴ 210
62
votes
14
replies
191k
views
9 follow
How To Deal With Duplicate Row Names Error In R
r
updated 7 months ago by
zx8754
11k • written 10.8 years ago by
Diana
▴ 900
12
votes
6
replies
191k
views
How can I uninstall my packages in Rstudio
R
Bioconductor
updated 3.2 years ago by
zx8754
11k • written 5.8 years ago by
hassanlou110
▴ 40
118
votes
31
replies
190k
views
17 follow
Correct Way To Parse A Fasta File In Python
python
fasta
updated 14 days ago by
Ram
41k • written 13.6 years ago by
Eric Normandeau
11k
130
votes
19
replies
178k
views
13 follow
What'S The Difference Between Cds And Orf?
cds
orf
updated 2.6 years ago by
kajumi
• 0 • written 11.5 years ago by
shiy05
▴ 360
151
votes
42
replies
178k
views
22 follow
How Do I Draw A Heatmap In R With Both A Color Key And Multiple Color Side Bars?
heatmap
r
updated 18 months ago by
Ram
41k • written 11.7 years ago by
Obi Griffith
20k
282
votes
39
replies
176k
views
29 follow
Tutorial:
How to download raw sequence data from GEO/SRA
fastq
SRA
bam
GEO
updated 8 months ago by
Ram
41k • written 9.3 years ago by
Obi Griffith
20k
198
votes
21
replies
173k
views
12 follow
Forward And Reverse Strand Conventions
sequence
strand
updated 12 months ago by
Istvan Albert
99k • written 13.1 years ago by
Andrea_Bio
★ 2.8k
163
votes
8
replies
170k
views
Generate vcf.gz file and its index file vcf.gz.tbi
vcf
tabix
updated 16 months ago by
Ram
41k • written 10.9 years ago by
lyz10302012
▴ 450
124
votes
13
replies
168k
views
13 follow
How Can I Convert Bam To Sam?
bam
next-gen-sequencing
sam
updated 11 weeks ago by
Ram
41k • written 13.4 years ago by
Biomed
4.9k
142
votes
14
replies
167k
views
16 follow
What Is The Sequencing 'Depth' ?
next-gen
sequencing
updated 17 days ago by
Ram
41k • written 13.6 years ago by
Pierre Lindenbaum
158k
135
votes
18
replies
165k
views
16 follow
Blast - Formatting Output
blast
format
output
updated 11 months ago by
katieostrouchov
▴ 30 • written 10.0 years ago by
timjoncooper
▴ 320
95
votes
39
replies
146k
views
19 follow
Extract Reads From A Bam File That Fall Within A Given Region
bam
updated 7 months ago by
Dan
▴ 160 • written 11.4 years ago by
abi
▴ 380
231
votes
38
replies
142k
views
29 follow
Tool:
Converting Genome Coordinates From One Genome Version To Another (Ucsc Liftover, Ncbi Remap, Ensembl Api)
ensembl
genome-coordinates
liftover
updated 5 months ago by
Ram
41k • written 10.7 years ago by
Malachi Griffith
19k
361
votes
81
replies
141k
views
34 follow
Tool:
Gnu Parallel - Parallelize Serial Command Line Programs Without Changing Them
parallel
next-gen
ngs
7 months ago by
ole.tange
★ 4.4k
10
votes
4
replies
133k
views
How To Count The Number Of Elements In A Column Other Than 'X' In R
r
programming
updated 12.4 years ago by
Stefano Berri
4.4k • written 12.4 years ago by
Don
▴ 20
146
votes
31
replies
133k
views
26 follow
Useful Bash Commands To Handle Fasta Files
command-line
fasta
bash
updated 4 months ago by
Ram
41k • written 11.8 years ago by
Anima Mundi
★ 2.9k
772
votes
164
replies
128k
views
107 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 7 weeks ago by
Biostar
2.3k • written 7.0 years ago by
Istvan Albert
99k
129
votes
32
replies
127k
views
29 follow
Is There A Free Alternative To Ingenuity Pathway Analysis?
network
pathway
updated 20 months ago by
Ram
41k • written 12.7 years ago by
Gon
▴ 540
13
votes
8
replies
126k
views
7 follow
Convert A Text File Into A Fasta File
fasta
updated 14 months ago by
Ram
41k • written 12.1 years ago by
Zhshqzyc
▴ 520
23
votes
9
replies
125k
views
8 follow
How to calculate "fold changes" in gene expression?
R
gene
updated 9 months ago by
Ram
41k • written 8.6 years ago by
juan.rosas1
▴ 70
164
votes
52
replies
124k
views
28 follow
Fastq Convert To Fasta
perl
10.1 years ago by
biolab
★ 1.4k
26
votes
10
replies
122k
views
Calculating P-Values From Z-Scores
statistics
r
updated 17 months ago by
Ram
41k • written 11.8 years ago by
Diana
▴ 900
99
votes
9
replies
122k
views
11 follow
How To Merge Two Fastq.Gz Files?
merge
fastq
updated 19 months ago by
henry-keen
▴ 40 • written 10.2 years ago by
newDNASeqer
▴ 750
119
votes
25
replies
121k
views
12 follow
Where Can I Download Human Reference Genome In Fasta Format? Hgref.Fa File
human
fasta
sequence
bwa
updated 6.8 years ago by
Hajk-Georg Drost
▴ 160 • written 13.4 years ago by
Biomed
4.9k
66
votes
18
replies
120k
views
14 follow
from .BAM to .BAI using samtools
next-gen-sequencing
samtools
updated 5 months ago by
Ram
41k • written 9.1 years ago by
Kizuna
▴ 860
3
votes
3
replies
117k
views
Find mismatch in two columns in a data frame in R
R
updated 7.7 years ago by
dan.shea
▴ 10 • written 7.7 years ago by
dirranrak
▴ 20
46
votes
10
replies
114k
views
8 follow
Which Expression Units To Use, Fpkm Or Rpkm ?
fpkm
rpkm
rna-seq
updated 11 months ago by
Ram
41k • written 10.7 years ago by
biorepine
★ 1.5k
119
votes
7
replies
113k
views
Bam And Indexed Bam Files
bam
index
11.9 years ago by
Sahel
▴ 260
115
votes
21
replies
112k
views
14 follow
When To Choose Python Over Perl (And Vice Versa)?
python
perl
comparison
updated 11.7 years ago by
Aditya Joshi
▴ 30 • written 12.1 years ago by
Niek De Klein
★ 2.6k
76
votes
26
replies
112k
views
15 follow
How to count fastq reads
sequence
next-gen
fastq
reads
updated 4 days ago by
cschu181
★ 2.8k • written 8.6 years ago by
Chenglin
▴ 260
101
votes
34
replies
107k
views
23 follow
How To Split A Bam File By Chromosome
bam
split
chromosome
updated 8 weeks ago by
Jorge Amigo
14k • written 11.5 years ago by
GPR
▴ 390
91
votes
10
replies
107k
views
11 follow
Best Way To Do Pathway Analysis Of A Set Of Genes?
protein
genes
pathway
analysis
function
updated 11.6 years ago by
Guangchuang Yu
★ 2.6k • written 11.6 years ago by
Wayne
★ 1.0k
100
votes
15
replies
106k
views
15 follow
Convertion Of Gff3 To Gtf
gtf
gff
updated 8 months ago by
Genetics
▴ 20 • written 11.5 years ago by
GouthamAtla
12k
28
votes
8
replies
106k
views
7 follow
How To Calculate Fpkm (Fragments Per Kilobase Of Exon Per Million Fragments Mapped)
rna
fpkm
rpkm
written 12.7 years ago by
User 5402
▴ 210
64
votes
9
replies
104k
views
10 follow
Blog:
Gene expression units explained: RPM, RPKM, FPKM and TPM
gene-expression
RNA-Seq
updated 9 months ago by
Ram
41k • written 6.2 years ago by
Renesh
★ 2.2k
118
votes
15
replies
103k
views
15 follow
Economics Of A Career In Bioinformatics
career
updated 12.9 years ago by
Mona Mohamed
• 0 • written 13.1 years ago by
Terence
▴ 210
288
votes
33
replies
102k
views
25 follow
Tutorial:
Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems
coordinates
updated 9 months ago by
Ram
41k • written 10.1 years ago by
Obi Griffith
20k
121
votes
56
replies
97k
views
24 follow
How to plot coverage and depth statistics of a bam file
bam
coverage
depth
next-gen-sequencing
updated 8 weeks ago by
William
▴ 20 • written 9.4 years ago by
kay
▴ 340
31
votes
8
replies
96k
views
8 follow
How Do You Start Writing An Algorithm? Help Needed!
java
structure
algorithm
updated 12.9 years ago by
Hazel
• 0 • written 13.6 years ago by
Hazel
▴ 70
170
votes
41
replies
93k
views
27 follow
Multiline Fasta To Single Line Fasta
fasta
updated 9 weeks ago by
Ram
41k • written 12.5 years ago by
Palu
▴ 250
43
votes
8
replies
92k
views
samtools sorting and indexing
samtools
index
sort
updated 3.9 years ago by
onestop_data
▴ 330 • written 6.4 years ago by
ggman
▴ 80
85
votes
16
replies
92k
views
9 follow
Number of mapped reads from BAM file
bam
sam
reads
mapping
updated 12 months ago by
bhanu.chandra1
▴ 50 • written 8.6 years ago by
Prakki Rama
★ 2.7k
97
votes
19
replies
92k
views
12 follow
How To Get The Sequence Of A Genomic Region From Ucsc?
ucsc
fasta
sequence
updated 5 weeks ago by
Ram
41k • written 13.8 years ago by
Giovanni M Dall'Olio
28k
173
votes
30
replies
91k
views
17 follow
What Is The Best Method To Find Orthologous Genes Of A Species?
orthologues
updated 22 months ago by
Ram
41k • written 12.6 years ago by
Ct586
▴ 610
238
votes
176
replies
90k
views
73 follow
Tutorial:
Survival analysis of TCGA patients integrating gene expression (RNASeq) data
RNA-Seq
Survival
TCGA
updated 6 months ago by
Ram
41k • written 8.3 years ago by
TriS
★ 4.7k
1,000 results • Page
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Recent Votes
Comment: Construction of single sequence assembly out of contigs
Answer: featureCounts results: low rate of 'Successfully assigned alignments'
The Biostar Herald for Monday, November 27, 2023
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Answer: Best practices for unstranded sequences in featureCounts
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Comment: Filter out ALT contigs from CRAM
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Honestly I have not assessed duplication after assembly. However I used trimmomatic for data filtration before assembly. Trimmomatic param…
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I could see the following clues from - hisat2 - ```23026867 (61.37%) aligned concordantly >1 times``` And from featureCounts - ``` Mu…
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I am also facing the same problem. I will be grateful if you help me out for this.
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Thank you very much for organising the 'awesome-genome-visualization' collection. I searched in your database before I made this question …
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