Update index.md

PacificBiosciences · Feb 25, 2022 · d7c7e65 · d7c7e65
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 ***
 
 _Skera_ splits arrayed PacBio reads at adapter positions generating
-([read-segments](/skera/read-segments)). For each input/parent read (e.g. HiFi)
+([read-segments](/read-segments)). For each input/parent read (e.g. HiFi)
 _skera_ will create multiple bam records, one for each fragment. A parent read
 can contain many fragments. _Skera_ has two major functions, split and undo.
 _Skera_ undo reconstitutes the original parent read from input fragments;
@@ -33,9 +33,9 @@ page](https://github.com/PacificBiosciences/pbbioconda) for information on
 Installation, Support, License, Copyright, and Disclaimer.
 
 ## Versions
-Version **0.0.100**: [Full changelog here](/skera/changelog)
+Version **0.0.100**: [Full changelog here](/changelog)
 
 ## Execution
 Skera run on HiFi reads in PacBio BAM format:
 
-    skera --algorithm kmer <movie>.hifi_reads.bam adapters.fasta <movie>.skera.bam
+    skera --algorithm kmer <movie>.hifi_reads.bam adapters.fasta <movie>.skera.bam