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409

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32k

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190 follow

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News: The Biostar Handbook. A bioinformatics e-book for beginners.

tutorial news training handbook written 2.1 years ago by Istvan Albert ♦♦ 78k • updated 8 hours ago by africainterpol101 • 0

190

votes

answers

76k

views

167 follow

answers

Tutorial: How to download raw sequence data from GEO/SRA

geo sra fastq tutorial download bam written 4.4 years ago by Obi Griffith ♦ 17k • updated 5 weeks ago by Renesh • 1.5k

241

votes

answers

12k

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163 follow

answers

Forum: Bioinformatics courses, workshops or training

tutorial training forum courses workshop written 3.7 years ago by Deepak Tanwar • 3.9k

236

votes

answers

23k

views

162 follow

answers

Forum: Up-to-date RNA-Seq Analysis Training/Courses/Papers (Dec 2017)

forum papers tutorial rna-seq sequencing written 3.0 years ago by CandiceChuDVM • 1.8k

159

votes

answers

45k

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157 follow

answers

Tutorial: Survival analysis of TCGA patients integrating gene expression (RNASeq) data

tutorial tcga rna-seq survival written 3.5 years ago by TriS • 3.5k • updated 5 weeks ago by skjobs0123 • 0

304

votes

answers

105k

views

154 follow

answers

Tool: Gnu Parallel - Parallelize Serial Command Line Programs Without Changing Them

parallel tools next-gen ngs tool written 5.9 years ago by ole.tange • 3.3k • updated 8 months ago by suny.bio • 0

1031

votes

answers

30k

views

154 follow

answers

What Are The Most Common Stupid Mistakes In Bioinformatics?

software written 7.8 years ago by Jeremy Leipzig ♦ 18k • updated 16 months ago by mforde84 • 1.2k

164

votes

answers

52k

views

121 follow

answers

Tutorial: Analysing Microarray Data In Bioconductor

tutorial analysis bioconductor microarray written 6.3 years ago by Obi Griffith ♦ 17k • updated 14 months ago by Kevin Blighe ♦ 35k

178

votes

answers

42k

views

120 follow

answers

Tutorial: Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems

tutorial coordinates written 5.2 years ago by Obi Griffith ♦ 17k

227

votes

answers

131k

views

108 follow

answers

Tools To Calculate Average Coverage For A Bam File?

bam coverage sequencing written 8.0 years ago by Biomed ♦ 4.4k • updated 5 months ago by WouterDeCoster ♦ 36k

128

votes

answers

42k

views

108 follow

answers

Tutorial: Tools For Metagenomic Data Analysis

metagenomics next-gen tutorial written 6.1 years ago by vijay • 1.4k • updated 5 months ago by MetaTK • 10

186

votes

answers

128k

views

97 follow

answers

How To Filter Mapped Reads With Samtools

samtools written 6.2 years ago by sohadb1357 • 470 • updated 5 months ago by Simply Bioinformatics • 110

144

votes

answers

16k

views

92 follow

answers

Which Bioinformatic Friendly Pipeline Building Framework?

scripting written 5.0 years ago by Carlos Borroto • 1.8k

322

votes

answers

35k

views

91 follow

answers

Recommend Your Favorite Bioinformatics Books

books education written 8.9 years ago by Istvan Albert ♦♦ 78k • updated 13 months ago by KVC_bioinfo • 350

124

votes

answers

37k

views

89 follow

answers

Tutorial: Working with MAF files (Mutation Annotation Format) from the TCGA (The Cancer Genome Atlas)

cancer tutorial tcga maf music mutation written 5.8 years ago by Cyriac Kandoth ♦ 5.2k • updated 11 months ago by Shicheng Guo • 7.3k

148

votes

answer

74k

views

89 follow

answer

Tool: Converting Genome Coordinates From One Genome Version To Another (Ucsc Liftover, Ncbi Remap, Ensembl Api)

tool genome conversion coordinates ensembl liftover written 5.9 years ago by Malachi Griffith ♦ 17k

204

votes

answers

229k

views

88 follow

answers

Gene Id Conversion Tool

mapping conversion written 9.2 years ago by Renee • 560 • updated 14 months ago by Jerry Zhu • 0

votes

answers

23k

views

83 follow

answers

Tutorial: Machine Learning For Cancer Classification - Part 1 - Preparing The Data Sets

bioconductor expression classification microarray tutorial written 5.2 years ago by Obi Griffith ♦ 17k • updated 2.1 years ago by yuanjun.ma • 0

228

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answers

5.2k

views

80 follow

answers

Forum: Good Habit for Bioinformatics Analyst or Scientist

analyst forum habit scientist written 2.7 years ago by Shicheng Guo • 7.3k

133

votes

answers

15k

views

78 follow

answers

Tutorial: A few words for R beginners

R beginner swirl tutorial written 4.1 years ago by Parham • 1.4k • updated 2.3 years ago by hed.robin • 30

173

votes

answers

60k

views

77 follow

answers

Drawing Chromosome Ideograms With Data

visualization ideogram chromosome written 8.8 years ago by Yuri • 1.5k • updated 14 months ago by bernatgel • 1.5k

270

votes

answers

12k

views

75 follow

answers

Bioinformatics "Cheat Sheet"

written 7.8 years ago by Chris Miller ♦ 20k • updated 2.2 years ago by jokipokemon0002 • 0

109

votes

answers

47k

views

75 follow

answers

Tutorial: Piping With Samtools, Bwa And Bedtools

bedtools tutorial samtools unix bwa written 6.7 years ago by Ying W • 3.9k • updated 3.2 years ago by Yaseen Ladak • 20

227

votes

answers

62k

views

73 follow

answers

What Is The Best Pipeline For Human Whole Exome Sequencing?

exome illumina next-gen human sequencing written 8.6 years ago by Biomed ♦ 4.4k • updated 4.0 years ago by Barry • 40

168

votes

answers

47k

views

70 follow

answers

How To Remove The Same Sequences In The Fasta Files?

fasta duplicates sequence written 8.3 years ago by Zhangleisdau • 270 • updated 9 weeks ago by michau • 10

307

votes

answers

16k

views

69 follow

answers

Your Favorite Bioinformatics Blogs (March 2010)

subjective written 8.9 years ago by Giovanni M Dall'Olio ♦ 26k • updated 6 months ago by CY • 270

votes

answer

5.9k

views

68 follow

answer

Tutorial: Current Topics in Genome Analysis 2014 (collection of educational lectures)

lectures tutorial training genomics workshop written 4.6 years ago by Malachi Griffith ♦ 17k

126

votes

answers

48k

views

66 follow

answers

Recommended Tools For Alternative Splicing Detection From Rna-Seq Data

splicing tools rna-seq alternative-splicing written 5.9 years ago by Nicolas Rosewick ♦ 7.2k • updated 9 months ago by kristoffer.vittingseerup • 1.2k

votes

answers

48k

views

66 follow

answers

Tutorial: Machine Learning For Prediction of Relapse in Cancer - Part 2 - Building A Random Forest Classifier

R tutorial classification cancer written 5.2 years ago by Nicholas Spies • 1.0k • updated 4 months ago by RamRS ♦ 20k

179

votes

answers

23k

views

66 follow

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How To Organize A Pipeline Of Small Scripts Together?

pipeline general written 8.9 years ago by Giovanni M Dall'Olio ♦ 26k • updated 6 months ago by Biostar ♦♦ 20

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Recent Replies

C: Downloading individual reads from SRA by mnmalash • 0
It worked well with single ends and paired ends. However, in paired ends, it downloads both not e...
C: How to predict individual ethnicity information by using hapmap data by Kevin Blighe ♦ 35k
Sorry - now slow response because I went out. I see.. and the plot result was as you expected wh...
C: Where can I find phage nucleotide sequences with lytic/lysogenic labels? by karl.stamm ♦ 3.4k
You've asked an awful lot of questions.
C: How to generate a short sequence that does not align to the RefSeq? by jrj.healey ♦ 9.8k
Just thinking aloud, but you could screen for low abundance kmers in the Human genome, and then c...
C: how to change the sequence ID and order of sequences in a file to match an align by Kay • 0
Assuming alignment file is also in fasta file, and the sequence ID is not truncated. Is it possib...
C: Use OrthoDB to retrieve the orthologs between human and bacteria by Christophe Dessimoz • 510
https://omabrowser.org/oma/release/
C: Downloading individual reads from SRA by mnmalash • 0
I have already searched the whole sequences for HMMs of interest and those are the positive reads...
C: Need Help with splicing exons on Python by jrj.healey ♦ 9.8k
If this is a homework/assignment task, you need to show some effort first else this thread will b...
C: What is the best way to costract a Crispr library by Ahill • 1.3k
You might need to provide more details about your experimental goal and methods to get useful fee...
C: How to predict individual ethnicity information by using hapmap data by aksoyluinci • 0
Hello Kevin, Thanks for your super fast response. What i meant is that i wanted to add a color ...
A: How to calculate the fraction of bases that are different from the reference bas by M.O.L.S • 0
How to add headers to a dataframe? import pandas as pd print("These are the headers for...
C: How to predict individual ethnicity information by using hapmap data by Kevin Blighe ♦ 35k
What have you tried so far? Note that I have just had a new package, *PCAtools*, accepted to Bioc...

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