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K-mers using JEllyfish

counters sequence k-mers jellyfish written 3.3 years ago by itsthegodzgarbage • 10 • updated 11 weeks ago by student-t • 380

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Counting k-mers in a multifasta file

k-mer counting k-mers written 5 months ago by ldyer2006 • 0 • updated 5 months ago by Alex Reynolds ♦ 20k

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Problem: kmergenie has a minimum number of input of reads?

kmergenie k-mers written 2.6 years ago by Leandro de Mattos • 60

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k-mer tools - probability based models

rna-seq k-mers written 3.2 years ago by sam • 110 • updated 3.2 years ago by edrezen • 680

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Recent Replies

C: SNP position in UTRs by deepak.k.choubey • 10
what you get back from the REST-API is in JSON format. Most commonly used programming languag...
C: my hisat cannot build index fileds normaly by WouterDeCoster ♦ 21k
You shouldn't rename them. The manual is unclear on the files created but there is nothing to wor...
C: How many index files will be generated from hisat2-build by WouterDeCoster ♦ 21k
8 files is the expected output of indexing.
C: How to interpret and trim this plots? by eyonesi • 0
thanks for your answer. Can I ignore all output even if it shows two peaks in gc content? with ...
A: Unable to install SNPhylo in ubuntu by Leeandroid v2.9 • 0
I don't know if I fully understand what you mean but I believe that the problem is the R installa...
C: Best Way To Do Pathway Analysis Of A Set Of Genes? by jimhavrilla • 0
Yes, CPDB was incredibly useful. This database needs to be more well-known. Also Reactome and D...
C: TopHat BAM file explanation by Pierre Lindenbaum ♦ 98k
no, you'll get false positives.
C: How to run EXCAVATOR2? by pradyumna Sagar • 10
Hi, I just found out that the issue was with the R script in package and the R version I am using...
C: how to resolve this 1-bases cordinates confusion by adeenahassan77 • 30
Yes, you are right i guess problem is in my file format. > actually i have fetched column 4 ...
A: How to extract a region from a reference sequence which does not align with a gi by Phoenix • 100
Try the following `samtools faidx reference.fasta` samtools faidx reference.fasta chr:1-n
C: how to resolve this 1-bases cordinates confusion by adeenahassan77 • 30
Thank u so much your answer is helpful.
C: TopHat BAM file explanation by qudrat • 0
Thank you! I have one more question. I am doing Cufflinks analysis on hundreds of index BAM file....

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