This is a collection of small scripts built by the Lenz lab to make RNA sequencing tasks more efficient.
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Fasta.pm
README.md
comparetables.pl
comphist.pl
comphist2.pl
countconsec.pl
fastatest.pl
fastqDivide.pl
filterduplicates.pl
findpatterns.pl
firstseq.pl
getmultiples.pl
longestseq.pl
onlycomp.pl
querytable.pl
removeadapter.pl
scriptdescriptions.txt
segmentFinder.pl
segregate.pl
slidingMatch.pl
sorttable.pl
subfasta.pl

README.md

RNA-seq-scripts

This is a collection of small scripts built by the Lenz lab to make RNA sequencing tasks more efficient.

./comphist.pl somename.fasta

perl comphist.pl somename.fasta

./subfasta choices.txt somename.fasta

perl subfasta choices.txt somename.fasta

choices.txt looks like this...

comp199230_c0_seq1

comp184052_c1_seq42

if you like you can pipe the output to another file

./comphist.pl somename.fasta > histogram.txt

./subfasta choices.txt somename.fasta > smaller.fasta